diff --git a/1-enrich-with-datacite/all_datacite_clients_for_uga.csv b/1-enrich-with-datacite/all_datacite_clients_for_uga.csv
index 291d24562749fc85071b654b42f17c5e20a6f27d..0d97cef126258c747bdd2ba421e05800a09e790c 100644
--- a/1-enrich-with-datacite/all_datacite_clients_for_uga.csv
+++ b/1-enrich-with-datacite/all_datacite_clients_for_uga.csv
@@ -1,8 +1,8 @@
 client,count,name,year,url
-cern.zenodo,730,Zenodo,2013,https://zenodo.org/
+cern.zenodo,743,Zenodo,2013,https://zenodo.org/
 inist.sshade,471,Solid Spectroscopy Hosting Architecture of Databases and Expertise,2019,https://www.sshade.eu/
+figshare.ars,255,figshare Academic Research System,2016,http://figshare.com/
 inist.osug,238,Observatoire des Sciences de l'Univers de Grenoble,2014,http://doi.osug.fr
-figshare.ars,232,figshare Academic Research System,2016,http://figshare.com/
 dryad.dryad,156,DRYAD,2018,https://datadryad.org
 inist.resif,79,Réseau sismologique et géodésique français,2014,https://www.resif.fr/
 inist.persyval,55,PERSYVAL-Lab : Pervasive Systems and Algorithms Lab,2016,
diff --git a/1-enrich-with-datacite/nb-dois.txt b/1-enrich-with-datacite/nb-dois.txt
index cce01b7dde632f61c64830eb905f12515a862588..d37329ca5c23851d01876d9954d013752d8a9613 100644
--- a/1-enrich-with-datacite/nb-dois.txt
+++ b/1-enrich-with-datacite/nb-dois.txt
@@ -1 +1 @@
-2117
\ No newline at end of file
+2153
\ No newline at end of file
diff --git a/2-produce-graph/hist-evol-datasets-per-repo.png b/2-produce-graph/hist-evol-datasets-per-repo.png
index 79ac85de0da1d1f9e84352e74a02972759670cd8..a86869948b3c08e9a6be2a3a615475d91a54054d 100644
Binary files a/2-produce-graph/hist-evol-datasets-per-repo.png and b/2-produce-graph/hist-evol-datasets-per-repo.png differ
diff --git a/2-produce-graph/hist-last-datasets-by-client.png b/2-produce-graph/hist-last-datasets-by-client.png
index 2da4afd95e815e9c6203f6455b679feeb237e0b4..10e3a0c77f385581f0550ff21d0d1bf3b4b39cad 100644
Binary files a/2-produce-graph/hist-last-datasets-by-client.png and b/2-produce-graph/hist-last-datasets-by-client.png differ
diff --git a/2-produce-graph/hist-quantity-year-type.png b/2-produce-graph/hist-quantity-year-type.png
index 8e3bb62174161cef5665bb2ad4d468aead8ac3d9..15f604e16c8c93573ef8668b456ab7658746d36d 100644
Binary files a/2-produce-graph/hist-quantity-year-type.png and b/2-produce-graph/hist-quantity-year-type.png differ
diff --git a/2-produce-graph/pie--datacite-client.png b/2-produce-graph/pie--datacite-client.png
index 1f3c46f5ed2cf188ddff2589267e6f6d91bc0f46..e948a803ab06df98edda1a290164de6e8225ffd5 100644
Binary files a/2-produce-graph/pie--datacite-client.png and b/2-produce-graph/pie--datacite-client.png differ
diff --git a/2-produce-graph/pie--datacite-type.png b/2-produce-graph/pie--datacite-type.png
index fb903c53c9f0193a5ff8e31b3e9dced8bfb741d6..3e982d513de0bc0f4a71069b15beae920415fe84 100644
Binary files a/2-produce-graph/pie--datacite-type.png and b/2-produce-graph/pie--datacite-type.png differ
diff --git a/dois-uga.csv b/dois-uga.csv
index 3de5f4a940206432977edbc779e824704a04a5d3..c6ab5887fe960018d4badc94a05bf484182ff2d0 100644
--- a/dois-uga.csv
+++ b/dois-uga.csv
@@ -6130,3 +6130,641 @@ Fixed issues with latest release of tinytable.
 
 Fixed issues with latest release of PROreg.",api,True,findable,0,0,0,1,0,2024-03-16T08:56:29.000Z,2024-03-16T08:56:29.000Z,cern.zenodo,cern,,,,
 10.18150/vbwcr1,Coherent imaging and dynamics of excitons in MoSe2 monolayers epitaxially grown on hexagonal boron nitride,RepOD,2024,,Dataset,,"The source data file for a publication: ""Coherent imaging and dynamics of excitons in MoSe2 monolayers epitaxially grown on hexagonal boron nitride""..gwy and .asc files were created using Gwyddion 2.59 software, for more information see http://gwyddion.net/Abstract:Using four-wave mixing microscopy, we measure the coherent response and ultrafast dynamics of excitons and trions in MoSe2 monolayers grown by molecular beam epitaxy on thin films of hexagonal boron nitride. We assess inhomogeneous and homogeneous broadenings in the transition spectral lineshape. The impact of phonons on the homogeneous dephasing is inferred via the temperature dependence of the dephasing. Four-wave mixing mapping, combined with atomic force microscopy, reveals spatial correlations between exciton oscillator strength, inhomogeneous broadening and the sample morphology. The quality of the coherent optical response of epitaxially grown transition metal dichalcogenides now becomes comparable to the samples produced by mechanical exfoliation, enabling the coherent nonlinear spectroscopy of innovative materials, like magnetic layers or Janus semiconductors.",mds,True,findable,0,0,0,0,0,2024-01-05T10:19:33.000Z,2024-03-15T18:29:14.000Z,tib.repod,repod,,,,
+10.6084/m9.figshare.c.5523088,Variability of multi-omics profiles in a population-based child cohort,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Multiple omics technologies are increasingly applied to detect early, subtle molecular responses to environmental stressors for future disease risk prevention. However, there is an urgent need for further evaluation of stability and variability of omics profiles in healthy individuals, especially during childhood. Methods We aimed to estimate intra-, inter-individual and cohort variability of multi-omics profiles (blood DNA methylation, gene expression, miRNA, proteins and serum and urine metabolites) measured 6 months apart in 156 healthy children from five European countries. We further performed a multi-omics network analysis to establish clusters of co-varying omics features and assessed the contribution of key variables (including biological traits and sample collection parameters) to omics variability. Results All omics displayed a large range of intra- and inter-individual variability depending on each omics feature, although all presented a highest median intra-individual variability. DNA methylation was the most stable profile (median 37.6% inter-individual variability) while gene expression was the least stable (6.6%). Among the least stable features, we identified 1% cross-omics co-variation between CpGs and metabolites (e.g. glucose and CpGs related to obesity and type 2 diabetes). Explanatory variables, including age and body mass index (BMI), explained up to 9% of serum metabolite variability. Conclusions Methylation and targeted serum metabolomics are the most reliable omics to implement in single time-point measurements in large cross-sectional studies. In the case of metabolomics, sample collection and individual traits (e.g. BMI) are important parameters to control for improved comparability, at the study design or analysis stage. This study will be valuable for the design and interpretation of epidemiological studies that aim to link omics signatures to disease, environmental exposures, or both.",mds,True,findable,0,0,0,0,0,2021-07-22T03:27:05.000Z,2021-07-22T03:27:06.000Z,figshare.ars,otjm,"Genetics,FOS: Biological sciences","[{'subject': 'Genetics'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}]",,
+10.6084/m9.figshare.c.5005922,Impact of take-home messages written into slide presentations delivered during lectures on the retention of messages and the residents’ knowledge: a randomized controlled study,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Lectures with slide presentations are widely used to teach evidence-based medicine to large groups. Take-home messages (THMs) are poorly identified and recollected by students. We investigated whether an instruction to list THMs in written form on slides would improve the retention thereof by residents, and the residents’ level of knowledge, 1 month after lectures. Methods Prospective blinded randomized controlled study was conducted. Twelve lectures (6 control and 6 intervention lectures) were delivered to 73 residents. For the intervention lectures, the lecturers were instructed to incorporate clear written THMs into their slide presentations. The outcomes were ability of resident to recollect THMs delivered during a lecture (as assessed by accordance rate between the lecturers’ and residents’ THMs) and knowledge (as assessed by multiple choice questions (MCQs)). Results Data for 3738 residents’ THMs and 3410 MCQs were analyzed. The intervention did not significantly increase the number of THMs written on slides (77% (n = 20/26), 95% CI 56–91 vs 64% (n = 18/28), 95% CI 44–81, p = 0.31) nor THMs retention (13% (n = 238/1791), 95% CI 12–15 vs 17% (n = 326/1947), 95% 15–18, p = 0.40) nor knowledge (63.8 ± 26.2 vs 61.1 ± 31.4 /100 points, p = 0.75). In multivariable analyses performed with all THMs written on slides from the two groups, a superior knowledge was associated with notetaking during lectures (OR 1.88, 95% CI 1.41–2.51) and THMs retention (OR 2.17, 95% CI 1.54–3.04); and THMs retention was associated with written THMs (OR 2.94, 95% CI 2.20–3.93). Conclusions In lectures delivered to residents, a third of the THMs were not in written form. An intervention based on an explicit instruction to lecturers to provide THMs in written form in their slide presentations did not result in increased use of written THMs into the slide presentation or improvement of the THMs retention or level of knowledge. However, we showed that there was a strong positive association between writing THMs on a slide, retention of THMs and residents’ knowledge. Further researches are needed to assess interventions to increase written THMs in lectures by faculty. Trial registration ClinicalTrials.gov NCT01795651 (Fev 21, 2013).",mds,True,findable,0,0,1,0,0,2020-06-04T03:54:26.000Z,2020-06-04T03:54:28.000Z,figshare.ars,otjm,"Medicine,Sociology,FOS: Sociology,Immunology,FOS: Clinical medicine,Biological Sciences not elsewhere classified,Cancer,Science Policy","[{'subject': 'Medicine'}, {'subject': 'Sociology'}, {'subject': 'FOS: Sociology', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Cancer'}, {'subject': 'Science Policy'}]",,
+10.6084/m9.figshare.c.5105152,Epidural analgesia in ICU chest trauma patients with fractured ribs: retrospective study of pain control and intubation requirements,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Nonintubated chest trauma patients with fractured ribs admitted to the intensive care unit (ICU) are at risk for complications and may require invasive ventilation at some point. Effective pain control is essential. We assessed whether epidural analgesia (EA) in patients with fractured ribs who were not intubated at ICU admission decreased the need for invasive mechanical ventilation (IMV). We also looked for risk factors for IMV. Study design and methods This retrospective, observational, multicenter study conducted in 40 ICUs in France included consecutive patients with three or more fractured ribs who were not intubated at admission between July 2013 and July 2015. Results Of the 974 study patients, 788 were included in the analysis of intubation predictors. EA was used in 130 (16.5%) patients, and 65 (8.2%) patients required IMV. Factors independently associated with IMV were chronic respiratory disease (P = 0.008), worse SAPS II (P < 0.0001), flail chest (P = 0.02), worse Injury Severity Score (P = 0.0003), higher respiratory rate at admission (P = 0.02), alcohol withdrawal syndrome (P < 0.001), and noninvasive ventilation (P = 0.04). EA was not associated with decreases in IMV requirements, median numerical rating scale pain score, or intravenous morphine requirements from day 1 to day 7. Conclusions EA was not associated with a lower risk of IMV in chest trauma patients with at least 3 fractured ribs, moderate pain, and no intubation on admission. Further studies are needed to clarify the optimal pain control strategy in chest trauma patients admitted to the ICU, notably those with severe pain or high opioid requirements.",mds,True,findable,0,0,0,0,0,2020-08-28T04:01:44.000Z,2020-08-28T04:01:44.000Z,figshare.ars,otjm,"Medicine,Cell Biology,Genetics,FOS: Biological sciences,Neuroscience,Immunology,FOS: Clinical medicine,Science Policy,Mental Health,Hematology","[{'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Genetics'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Neuroscience'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Science Policy'}, {'subject': 'Mental Health'}, {'subject': 'Hematology'}]",,
+10.5281/zenodo.10852283,easystats/insight: insight 0.19.10,Zenodo,2024,,Software,Creative Commons Attribution 4.0 International,"Bug fixes
+
+
+
+
+Functions like find_variables() or clean_names() now support multi-membership
+formulas for models from brms.
+
+
+
+Updated tests to work with the latest changes in glmmTMB 1.1.9.",api,True,findable,0,0,0,0,0,2024-03-22T07:55:32.000Z,2024-03-22T07:55:33.000Z,cern.zenodo,cern,,,,
+10.6084/m9.figshare.c.6077710,Ten actions to achieve gender equity among intensivists: the French Society of Intensive Care (FICS) model,figshare,2022,,Collection,Creative Commons Attribution 4.0 International,"Abstract In our recent survey, we aimed to collect information on perceived inequity as well as professional and personal fulfillment among women intensivists in France. For the 371 respondents out of the 732 persons who received the survey, the findings were unequivocal: for one-third of the respondents, being a woman was considered as an obstacle to careers or academic advancement, and for two thirds, pregnancy was viewed as a barrier to their career advancement. Gender discrimination had been experienced by 55% of the respondents. In 2019, to promote and achieve gender equity in the French Intensive Care Society (FICS), ten actions were initiated and are detailed in the present manuscript together with supporting data: (1) creation of a working group: the FEMMIR group; (2) promotion of mentorship; (3) implementation of concrete sponsorship; (4) transparency and public reporting of gender ratios in editorial boards; (5) workshops dedicated to unconscious gender bias; (6) workshops dedicated to improved women assertiveness; (7) role models; (8) creation of educational/information programs for young intensivists; (9) development of research on gender inequity and, as a perspective; and (10) development of a wide-ranging program. This review is aimed at providing a toolbox of organizational best practices designed to achieve gender equity. It is particularly important to share promising practical action engaged in our FEMMIR group with other concerned professionals around the world.",mds,True,findable,0,0,0,0,0,2022-07-04T09:24:16.000Z,2022-07-04T09:24:18.000Z,figshare.ars,otjm,"Biotechnology,Biological Sciences not elsewhere classified,Science Policy,Mental Health","[{'subject': 'Biotechnology'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Science Policy'}, {'subject': 'Mental Health'}]",,
+10.5281/zenodo.10304165,3D CAD Assembly test models,Zenodo,2023,,Dataset,Creative Commons Attribution 4.0 International,"Set of 3D CAD assembly models in STEP AP 203 format.
+Assembly test models are devoted to evaluations of interfaces between components. The interfaces can be of type surface, rectilinear contacts, circular contacts, or punctual contacts.",api,True,findable,0,0,0,0,0,2024-03-21T15:09:14.000Z,2024-03-21T15:09:14.000Z,cern.zenodo,cern,,,,
+10.5281/zenodo.10841356,serasset/dbnary: Release v3.1.15,Zenodo,2024,,Software,Creative Commons Attribution 4.0 International,"Changelog
+
+d0900f1 Merge branch 'release/3.1.15'
+17813db Update versions for release
+889e503 cleanup(all): code style
+0b39033 fix(all): control chars stripping used the incorrect gnu syntax instead of java character class
+c398c95 fix(cicd): add gaelic and catalan in CICD verification
+3cf74aa fix(all): strip control chars arising from ill formed data in definitions and translations
+d87bce1 update(bliki): new version of bliki uses a luaj that is safe with suplementary chars, avoiding the generation of control (null) chars in some strings
+cc40f14 fix(english): Module:utilities uses the ugly strip marker hack, patch it
+1173526 fix(lua): Updated Bliki / Lua dependencies that fixes a bug with Strings with surrogates.
+6e390b8 fix(english): links in nyms are properly handled
+5ffc6b6 fix(english): capturing more nym relation with additional gloss/usage info
+184ffee fix(english): patching Module:place and Module:place/data due to error in lua code (remove when fixed in wiktionary)
+16d0885 fix(english): extracting senses that are abbreviation of something
+7fe4607 Update for next development version
+c8eda22 Merge branch 'release/3.1.14'
+d3a6e61 Merge branch 'release/3.1.14' into develop
+065f441 update(doc): License files span until 2024
+44a3319 Update versions for release
+ea78adb update(dependencies): bumping several dependencies to latest version
+e7c696c fix(spanish): FIX #138 part of speeches may now be given in templates
+73b46d6 update(dependencies): bumping several dependencies to latest version
+e18a149 fix(spanish): part of speeches may now be given in templates
+dbc059d fix(spanish): part of speeches may now be given in templates
+870130e Merge remote-tracking branch 'origin/develop' into develop
+9727442 fix(spanish): part of speeches may now be given in templates
+531f587 fix(spanish): part of speeches may now be given in templates
+5686259 fix(english): amend logging of derivation parser
+2989357 fix(virtuoso): use coherent naming for graphs (with no trailing /)
+df88474 fix(english): Correctly handling ja-usex template variants and redirects
+dbeb07f fix(maven): update scala libraries and compiler
+19f84ff fix(english): FIX #137 handling ja-usex template
+24956f3 fix(maven): update scala library
+81456a3 fix(virtuoso): the named graph for exolex should not finish with a trailing slach
+eb569d6 Clenup virtuoso.ini in production mode.
+f870b3b fix(dependencies): update bliki version
+40ece92 fix(scripts): allow sample size argument in local evaluation script
+e458b96 fix(english) use next bliki version (fix to php.loadPackage as used by japanese transcription programs)
+f3dafe0 Merge branch 'release/3.1.13'
+a103a2f Update versions for release
+72122e1 fix(catalan): error in pronunciation extraction
+3335c37 fix(catalan): many bibliographic references are blank
+d15df99 fix(dependencies): updated dependencies for security reasons
+771bfa2 fix(catalan): check given language before generating a lang string to avoid rdf errors.
+fe87545 fix(commands): add catalan and irish codes to the rotate virtuoso script
+9855eb3 Update for next development version
+5919911 Merge branch 'hotfix/3.1.12b' into develop
+54096e0 Update to hotfix version
+0077b4d Merge branch 'hotfix/3.1.12b'
+bcda578 fix(commands): do not generate HDT combined files anymore as it seems not to correctly work at least in English
+2286a94 enh(all): removed some code smells
+a865807 Update versions for hotfix
+2415121 fix(english): first attempt to extract pronunciations' locale information
+de6b6f3 fix(model): fixed lime:language as a measure property in statistics datacube
+5f5cd4f Update for next development version
+71438a9 Merge branch 'release/3.1.12'
+98c5887 Merge branch 'release/3.1.12' into develop
+fdb4d1d Update versions for release
+97df0a4 fix(extractor): added gaelic and catalan to default set of languages
+9902207 Merge branch 'feature/alet' into develop
+c2bafef Update versions for development branch
+d3accfe Bumping bliki version
+73eca1b Refactoring some var names.
+cf91bcf Extracting pronunciation dialect.
+116880d Patch infinite loop.
+07dba5f fix(catalan): changed bliki bundle message encoding
+d2461d1 Final commit for Catalan.
+dcc1127 commit stashed changes.
+0ea514d fix(catalan): added definition rendering
+9328c90 fix(gaelic): cleanup for code standards
+5d0362e Template args & exolex BIG check.
+e7d09d2 Big refactor, and finishing CA check.
+53318d1 Update for next development version
+58581fe Merge branch 'release/3.1.11' into develop
+376e686 Merge branch 'release/3.1.11'
+932175b Update versions for release
+eb2f760 fix(wikimodel): update bliki and taking into account the (now) correct management of the engine
+9922814 fix(maven/jreleaser): rollbacked problematic changes
+bd24918 Revert ""fix(bliki): we recreate lua engine for each page as nasty caches are flying around and break page isolation""
+2aaefea fixed a doc error
+2b8e997 fix(bliki): we recreate lua engine for each page as nasty caches are flying around and break page isolation
+37b81b3 Merge remote-tracking branch 'origin/master'
+b0561ea fix(bliki): we recreate lua engine for each page as nasty caches are flying around and break page isolation
+52df665 fix(bliki): we recreate lua engine for each page as nasty caches are flying around and break page isolation
+511a9dd fix(maven/jreleaser): rollbacked problematic changes
+e256104 Update for next development version
+9ee6432 Merge branch 'release/3.1.10'
+fe3f322 Merge branch 'release/3.1.10' into develop
+37962ef Update versions for release
+e2ec953 fix(serbo croatian): Fix #18: cyrilic form is now added to the canonical form
+19a5577 fix(german): Fix #24: now expand German definition using bliki
+326f2db fix(commands): catching StackOverflowError in extraction command lines
+2eef6e0 fix(commands): catching StackOverflowError in extraction command lines
+f9b9f24 fix(wikitext): fixed a stack overflow issue with large  wikitext
+de3b737 fix(no): translations extraction
+ce359a1 test(cicd): attempt using gitlab generic package upload
+f8b0bba cleanup(enhancement): simplifying test
+b00bb06 Merge branch 'release/3.1.9'
+abce2e2 Update versions for release
+73e2e9c fix(english): fix #128 some pronunciation where missing
+3e74edd fix(greek): avoiding a rare NPE in pronunciation extraction
+61acbe1 fix(virtuoso): normalized prod virtuoso config
+c32adee fix(all): Uses a Debug lua lig in case of call with lua classes trace enabled
+b747c58 fix(greek): updted scribunto to handle some greek edge case issues in Lua Modules
+eb71b54 fix(virtuoso) disabling the translatableAs linking SPARQL updatewq
+204d694 fix(virtuoso): allocate more memory to virtuoso bootstrap process
+c09b117 Merge branch 'develop'
+60240fe Update versions for release
+88e2f43 fix(extractor): updated scribunto and lua engine to cope with recently introduced errors from English Modules
+e419b1c Merge branch 'feature/struct-checker' into develop
+8846aad Update versions for development branch
+c49d088 fix(loading): re-enabling the vartrans translatableAs link creation for non homonymous translation targets
+1286a2d fix(english): better typing of Lexical Entries as Words, or MultiWordExpressions or Affixes
+83ddcef enhance(command): introducing a structure checking command that launch a language dependent class that is meant to perform some integrity checks on wiktionary pages structures
+33b4a1a enhancement(en) updated run conf
+525d756 fix(all) systematically removing safesubst from templates
+d53c000 cleanup(spanish) code style
+88949ac fix(spanish) fix a NPE in Spanish translation extractions
+4eab720 Merge branch 'release/3.1.7'
+5c67c6f Update versions for release
+b9de781 fix(german) added new vorname declination template extraction
+5c1d44a fix(german) incorrect declination filter for adjectives
+00fa112 Modified launch configuration
+4a6f073 fix(english) fixes notes extracted as derivations
+a3bb69d fix(german) better handling of Genus in Substantiv morphology
+095fea5 Merge branch 'hotfix/3.1.6-a'
+6620739 Update versions for hotfix
+7120e3e Merge branch 'hotfix/3.1.6_1'
+7b81c10 fix(french) checking language tag when creating example
+d2e6e52 fix(french) checking language tag when creating example
+89d83be Update versions for hotfix
+7ba4ba8 Merge branch 'release/3.1.6'
+c428ecc Update versions for release
+edc3018 fix(english) workaround several bugs in example extraction
+7aac67a fix(english) workaround a bug in bliki eval of English str left template
+31846a1 Merge branch 'release/3.1.5'
+2210fce Update versions for release
+2c4dfb4 enhance(english) first attempt in derivations extraction
+aa0c8b8 Merge branch 'release/3.1.4'
+f643f98 Update versions for release
+e7fe0ff Merge branch 'release/3.1.3'",api,True,findable,0,0,0,0,0,2024-03-19T22:52:13.000Z,2024-03-19T22:52:14.000Z,cern.zenodo,cern,,,,
+10.5281/zenodo.10863196,easystats/performance: performance 0.11.0,Zenodo,2024,,Software,Creative Commons Attribution 4.0 International,"New supported models
+
+
+
+Rudimentary support for models of class serp from package serp.
+
+
+New functions
+
+
+
+
+simulate_residuals() and check_residuals(), to simulate and check residuals
+from generalized linear (mixed) models. Simulating residuals is based on the
+DHARMa package, and objects returned by simulate_residuals() inherit from
+the DHARMa class, and thus can be used with any functions from the DHARMa
+package. However, there are also implementations in the performance package,
+such as check_overdispersion(), check_zeroinflation(), check_outliers()
+or check_model().
+
+
+
+Plots for check_model() have been improved. The Q-Q plots are now based
+on simulated residuals from the DHARMa package for non-Gaussian models, thus
+providing more accurate and informative plots. The half-normal QQ plot for
+generalized linear models can still be obtained by setting the new argument
+residual_type = ""normal"".
+
+
+
+Following functions now support simulated residuals (from simulate_residuals())
+resp. objects returned from DHARMa::simulateResiduals():
+
+
+
+check_overdispersion()
+
+check_zeroinflation()
+
+check_outliers()
+
+check_model()
+
+
+
+
+General
+
+
+
+
+Improved error messages for check_model() when QQ-plots cannot be created.
+
+
+
+check_distribution() is more stable for possibly sparse data.
+
+
+
+Bug fixes
+
+
+
+
+Fixed issue in check_normality() for t-tests.
+
+
+
+Fixed issue in check_itemscale() for data frame inputs, when factor_index
+was not a named vector.",api,True,findable,0,0,0,1,0,2024-03-23T08:06:58.000Z,2024-03-23T08:06:58.000Z,cern.zenodo,cern,,,,
+10.6084/m9.figshare.c.5814678,Clinical outcomes after treatment with direct antiviral agents: beyond the virological response in patients with previous HCV-related decompensated cirrhosis,figshare,2022,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background In HCV-infected patients with advanced liver disease, the direct antiviral agents-associated clinical benefits remain debated. We compared the clinical outcome of patients with a previous history of decompensated cirrhosis following treatment or not with direct antiviral agents from the French ANRS CO22 HEPATHER cohort. Methods We identified HCV patients who had experienced an episode of decompensated cirrhosis. Study outcomes were all-cause mortality, liver-related or non-liver-related deaths, hepatocellular carcinoma, liver transplantation. Secondary study outcomes were sustained virological response and its clinical benefits. Results 559 patients met the identification criteria, of which 483 received direct antiviral agents and 76 remained untreated after inclusion in the cohort. The median follow-up time was 39.7 (IQR: 22.7–51) months. After adjustment for multivariate analysis, exposure to direct antiviral agents was associated with a decrease in all-cause mortality (HR 0.45, 95% CI 0.24–0.84, p = 0.01) and non-liver-related death (HR 0.26, 95% CI 0.08–0.82, p = 0.02), and was not associated with liver-related death, decrease in hepatocellular carcinoma and need for liver transplantation. The sustained virological response was 88%. According to adjusted multivariable analysis, sustained virological response achievement was associated with a decrease in all-cause mortality (HR 0.29, 95% CI 0.15–0.54, p < 0.0001), liver-related mortality (HR 0.40, 95% CI 0.17–0.96, p = 0.04), non-liver-related mortality (HR 0.17, 95% CI 0.06–0.49, p = 0.001), liver transplantation (HR 0.17, 95% CI 0.05–0.54, p = 0.003), and hepatocellular carcinoma (HR 0.52, 95% CI 0.29–0.93, p = 0.03). Conclusion Treatment with direct antiviral agents is associated with reduced risk for mortality. The sustained virological response was 88%. Thus, direct antiviral agents treatment should be considered for any patient with HCV-related decompensated cirrhosis. Trial registration: ClinicalTrials.gov registry number: NCT01953458.",mds,True,findable,0,0,0,0,0,2022-01-28T04:30:42.000Z,2022-01-28T04:30:43.000Z,figshare.ars,otjm,"Space Science,Medicine,Biotechnology,Chemical Sciences not elsewhere classified,Immunology,FOS: Clinical medicine,Cancer,Science Policy,Infectious Diseases,FOS: Health sciences,Virology,Computational Biology","[{'subject': 'Space Science'}, {'subject': 'Medicine'}, {'subject': 'Biotechnology'}, {'subject': 'Chemical Sciences not elsewhere classified'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Cancer'}, {'subject': 'Science Policy'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Virology'}, {'subject': 'Computational Biology'}]",,
+10.6084/m9.figshare.c.5329928,Ability of procalcitonin to distinguish between bacterial and nonbacterial infection in severe acute exacerbation of chronic obstructive pulmonary syndrome in the ICU,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background To assess the ability of procalcitonin (PCT) to distinguish between bacterial and nonbacterial causes of patients with severe acute exacerbation of COPD (AECOPD) admitted to the ICU, we conducted a retrospective analysis of two prospective studies including 375 patients with severe AECOPD with suspected lower respiratory tract infections. PCT levels were sequentially assessed at the time of inclusion, 6 h after and at day 1, using a sensitive immunoassay. The patients were classified according to the presence of a documented bacterial infection (including bacterial and viral coinfection) (BAC + group), or the absence of a documented bacterial infection (i.e., a documented viral infection alone or absence of a documented pathogen) (BAC- group). The accuracy of PCT levels in predicting bacterial infection (BAC + group) vs no bacterial infection (BAC- group) at different time points was evaluated by receiver operating characteristic (ROC) analysis. Results Regarding the entire cohort (n = 375), at any time, the PCT levels significantly differed between groups (Kruskal–Wallis test, p < 0.001). A pairwise comparison showed that PCT levels were significantly higher in patients with bacterial infection (n = 94) than in patients without documented pathogens (n = 218) (p < 0.001). No significant difference was observed between patients with bacterial and viral infection (n = 63). For example, the median PCT-H0 levels were 0.64 ng/ml [0.22–0.87] in the bacterial group vs 0.24 ng/ml [0.15–0.37] in the viral group and 0.16 ng/mL [0.11–0.22] in the group without documented pathogens. With a c-index of 0.64 (95% CI; 0.58–0.71) at H0, 0.64 [95% CI 0.57–0.70] at H6 and 0.63 (95% CI; 0.56–0.69) at H24, PCT had a low accuracy for predicting bacterial infection (BAC + group). Conclusion Despite higher PCT levels in severe AECOPD caused by bacterial infection, PCT had a poor accuracy to distinguish between bacterial and nonbacterial infection. Procalcitonin might not be sufficient as a standalone marker for initiating antibiotic treatment in this setting.",mds,True,findable,0,0,0,0,0,2021-03-07T04:39:29.000Z,2021-03-07T04:39:30.000Z,figshare.ars,otjm,"Medicine,Microbiology,FOS: Biological sciences,Biotechnology,Immunology,FOS: Clinical medicine,Science Policy,Infectious Diseases,FOS: Health sciences,Virology","[{'subject': 'Medicine'}, {'subject': 'Microbiology'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biotechnology'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Science Policy'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Virology'}]",,
+10.6084/m9.figshare.c.4974425,Association of helicopter transportation and improved mortality for patients with major trauma in the northern French Alps trauma system: an observational study based on the TRENAU registry,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Prompt prehospital triage and transportation are essential in an organised trauma system. The benefits of helicopter transportation on mortality in a physician-staffed pre-hospital trauma system remains unknown. The aim of the study was to assess the impact of helicopter transportation on mortality and prehospital triage. Methods Data collection was based on trauma registry for all consecutive major trauma patients transported by helicopter or ground ambulance in the Northern French Alps Trauma system between 2009 and 2017. The primary endpoint was in-hospital death. We performed multivariate logistic regression to compare death between helicopter and ground ambulance. Results Overall, 9458 major trauma patients were included. 37% (n = 3524) were transported by helicopter, and 56% (n = 5253) by ground ambulance. Prehospital time from the first call to the arrival at hospital was longer in the helicopter group compared to the ground ambulance group, respectively median time 95 [72–124] minutes and 85 [63–113] minutes (P < 0.001). Median transport time was similar between groups, 20 min [13–30] for helicopter and 21 min [14–32] for ground ambulance. Using multivariate logistic regression, helicopter was associated with reduced mortality compared to ground ambulance (adjusted OR 0.70; 95% CI, 0.53–0.92; P = 0.01) and with reduced undertriage (OR 0.69 95% CI, 0.60–0.80; P < 0.001). Conclusion Helicopter was associated with reduced in-hospital death and undertriage by one third. It did not decrease prehospital and transport times in a system with the same crew using both helicopter or ground ambulance. The mortality and undertriage benefits observed suggest that the helicopter is the proper mode for long-distant transport to a regional trauma centre.",mds,True,findable,0,0,1,0,0,2020-05-13T03:38:14.000Z,2020-05-13T03:38:15.000Z,figshare.ars,otjm,"Medicine,Environmental Sciences not elsewhere classified,Sociology,FOS: Sociology,Biological Sciences not elsewhere classified,Cancer,Science Policy,Mental Health","[{'subject': 'Medicine'}, {'subject': 'Environmental Sciences not elsewhere classified'}, {'subject': 'Sociology'}, {'subject': 'FOS: Sociology', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Cancer'}, {'subject': 'Science Policy'}, {'subject': 'Mental Health'}]",,
+10.6084/m9.figshare.c.5705595,Targeted high mean arterial pressure aggravates cerebral hemodynamics after extracorporeal resuscitation in swine,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Extracorporeal cardiopulmonary resuscitation (E-CPR) is used for the treatment of refractory cardiac arrest. However, the optimal target to reach for mean arterial pressure (MAP) remains to be determined. We hypothesized that MAP levels critically modify cerebral hemodynamics during E-CPR and tested two distinct targets (65–75 vs 80–90 mmHg) in a porcine model. Methods Pigs were submitted to 15 min of untreated ventricular fibrillation followed by 30 min of E-CPR. Defibrillations were then delivered until return of spontaneous circulation (ROSC). Extracorporeal circulation was initially set to an average flow of 40 ml/kg/min. The dose of epinephrine was set to reach a standard or a high MAP target level (65–75 vs 80–90 mmHg, respectively). Animals were followed during 120-min after ROSC. Results Six animals were included in both groups. During E-CPR, high MAP improved carotid blood flow as compared to standard MAP. After ROSC, this was conversely decreased in high versus standard MAP, while intra-cranial pressure was superior. The pressure reactivity index (PRx), which is the correlation coefficient between arterial blood pressure and intracranial pressure, also demonstrated inverted patterns of alteration according to MAP levels during E-CPR and after ROSC. In standard-MAP, PRx was transiently positive during E-CPR before returning to negative values after ROSC, demonstrating a reversible alteration of cerebral autoregulation during E-CPR. In high-MAP, PRx was negative during E-CPR but became sustainably positive after ROSC, demonstrating a prolonged alteration in cerebral autoregulation after ROSC. It was associated with a significant decrease in cerebral oxygen consumption in high- versus standard-MAP after ROSC. Conclusions During early E-CPR, MAP target above 80 mmHg is associated with higher carotid blood flow and improved cerebral autoregulation. This pattern is inverted after ROSC with a better hemodynamic status with standard versus high-MAP.",mds,True,findable,0,0,0,0,0,2021-11-14T04:15:47.000Z,2021-11-14T04:15:49.000Z,figshare.ars,otjm,"Medicine,Neuroscience,Biological Sciences not elsewhere classified","[{'subject': 'Medicine'}, {'subject': 'Neuroscience'}, {'subject': 'Biological Sciences not elsewhere classified'}]",,
+10.6084/m9.figshare.c.5487977,Non-invasive ventilation versus high-flow nasal oxygen for postextubation respiratory failure in ICU: a post-hoc analysis of a randomized clinical trial,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background In intensive care units (ICUs), patients experiencing post-extubation respiratory failure have poor outcomes. The use of noninvasive ventilation (NIV) to treat post-extubation respiratory failure may increase the risk of death. This study aims at comparing mortality between patients treated with NIV alternating with high-flow nasal oxygen or high-flow nasal oxygen alone. Methods Post-hoc analysis of a multicenter, randomized, controlled trial focusing on patients who experienced post-extubation respiratory failure within the 7 days following extubation. Patients were classified in the NIV group or the high-flow nasal oxygen group according to oxygenation strategy used after the onset of post-extubation respiratory failure. Patients reintubated within the first hour after extubation and those promptly reintubated without prior treatment were excluded. The primary outcome was mortality at day 28 after the onset of post-extubation respiratory failure. Results Among 651 extubated patients, 158 (25%) experienced respiratory failure and 146 were included in the analysis. Mortality at day 28 was 18% (15/84) using NIV alternating with high-flow nasal oxygen and 29% (18/62) with high flow nasal oxygen alone (difference, − 11% [95% CI, − 25 to 2]; p = 0.12). Among the 46 patients with hypercapnia at the onset of respiratory failure, mortality at day 28 was 3% (1/33) with NIV and 31% (4/13) with high-flow nasal oxygen alone (difference, − 28% [95% CI, − 54 to − 6]; p = 0.006). The proportion of patients reintubated 48 h after the onset of post-extubation respiratory failure was 44% (37/84) with NIV and 52% (32/62) with high-flow nasal oxygen alone (p = 0.21). Conclusions In patients with post-extubation respiratory failure, NIV alternating with high-flow nasal oxygen might not increase the risk of death. Trial registration number The trial was registered at http://www.clinicaltrials.gov with the registration number NCT03121482 the 20th April 2017.",mds,True,findable,0,0,0,0,0,2021-06-29T04:59:40.000Z,2021-06-29T04:59:40.000Z,figshare.ars,otjm,"Medicine,Cell Biology,Physiology,FOS: Biological sciences,Immunology,FOS: Clinical medicine,Marine Biology,Cancer,Infectious Diseases,FOS: Health sciences,Virology,Computational Biology","[{'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Physiology'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Marine Biology'}, {'subject': 'Cancer'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Virology'}, {'subject': 'Computational Biology'}]",,
+10.5281/zenodo.10837804,Pulpino Top-Level CW305,Zenodo,2023,en,Software,GNU General Public License v3.0 or later,"A set of instructions, files and utilities to use the PULPINO RISC-V on a ChipWhisperer 305 FPGA.",api,True,findable,0,0,0,0,0,2024-03-19T10:37:15.000Z,2024-03-19T10:37:15.000Z,cern.zenodo,cern,"RISC-V,ChipWhisperer","[{'subject': 'RISC-V'}, {'subject': 'ChipWhisperer'}]",,
+10.5281/zenodo.10304164,A set of CAD assembly test models to evaluate component interfaces using CAD assembly modules,Zenodo,2024,,Dataset,Creative Commons Attribution 4.0 International,"Set of 3D CAD assembly models in STEP AP 203 format.
+
+Assembly test models are devoted to evaluations of interfaces between components. The interfaces can be of type surface, rectilinear contacts, circular contacts, or punctual contacts.
+
+The content and use of the test models are described into the pdf document: A set of CAD assembly test models to evaluate component interfaces using CAD assembly modules, available with the test models.
+
+ ",api,True,findable,0,0,0,0,2,2024-03-21T15:09:14.000Z,2024-03-21T15:09:14.000Z,cern.zenodo,cern,,,,
+10.6084/m9.figshare.c.6077576,Response to PEEP in COVID-19 ARDS patients with and without extracorporeal membrane oxygenation. A multicenter case–control computed tomography study,figshare,2022,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background PEEP selection in severe COVID-19 patients under extracorporeal membrane oxygenation (ECMO) is challenging as no study has assessed the alveolar recruitability in this setting. The aim of the study was to compare lung recruitability and the impact of PEEP on lung aeration in moderate and severe ARDS patients with or without ECMO, using computed tomography (CT). Methods We conducted a two-center prospective observational case–control study in adult COVID-19-related patients who had an indication for CT within 72 h of ARDS onset in non-ECMO patients or within 72  h after ECMO onset. Ninety-nine patients were included, of whom 24 had severe ARDS under ECMO, 59 severe ARDS without ECMO and 16 moderate ARDS. Results Non-inflated lung at PEEP 5 cmH2O was significantly greater in ECMO than in non-ECMO patients. Recruitment induced by increasing PEEP from 5 to 15 cmH2O was not significantly different between ECMO and non-ECMO patients, while PEEP-induced hyperinflation was significantly lower in the ECMO group and virtually nonexistent. The median [IQR] fraction of recruitable lung mass between PEEP 5 and 15 cmH2O was 6 [4–10]%. Total superimposed pressure at PEEP 5 cmH2O was significantly higher in ECMO patients and amounted to 12 [11–13] cmH2O. The hyperinflation-to-recruitment ratio (i.e., a trade-off index of the adverse effects and benefits of PEEP) was significantly lower in ECMO patients and was lower than one in 23 (96%) ECMO patients, 41 (69%) severe non-ECMO patients and 8 (50%) moderate ARDS patients. Compliance of the aerated lung at PEEP 5 cmH2O corrected for PEEP-induced recruitment (CBABY LUNG) was significantly lower in ECMO patients than in non-ECMO patients and was linearly related to the logarithm of the hyperinflation-to-recruitment ratio. Conclusions Lung recruitability of COVID-19 pneumonia is not significantly different between ECMO and non-ECMO patients, with substantial interindividual variations. The balance between hyperinflation and recruitment induced by PEEP increase from 5 to 15 cmH2O appears favorable in virtually all ECMO patients, while this PEEP level is required to counteract compressive forces leading to lung collapse. CBABY LUNG is significantly lower in ECMO patients, independently of lung recruitability.",mds,True,findable,0,0,0,0,0,2022-07-04T06:40:49.000Z,2022-07-04T06:40:54.000Z,figshare.ars,otjm,"Medicine,Microbiology,FOS: Biological sciences,Cell Biology,Physiology,Immunology,FOS: Clinical medicine,Science Policy","[{'subject': 'Medicine'}, {'subject': 'Microbiology'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Cell Biology'}, {'subject': 'Physiology'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Science Policy'}]",,
+10.6084/m9.figshare.c.5657338,Open-label randomized controlled trial of ultra-low tidal ventilation without extracorporeal circulation in patients with COVID-19 pneumonia and moderate to severe ARDS: study protocol for the VT4COVID trial,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Acute respiratory distress syndrome (ARDS) is a severe complication of COVID-19 pneumonia, with a mortality rate amounting to 34–50% in moderate and severe ARDS, and is associated with prolonged duration of invasive mechanical ventilation. Such as in non-COVID ARDS, harmful mechanical ventilation settings might be associated with worse outcomes. Reducing the tidal volume down to 4 mL kg−1 of predicted body weight (PBW) to provide ultra-low tidal volume ventilation (ULTV) is an appealing technique to minimize ventilator-inducted lung injury. Furthermore, in the context of a worldwide pandemic, it does not require any additional material and consumables and may be applied in low- to middle-income countries. We hypothesized that ULTV without extracorporeal circulation is a credible option to reduce COVID-19-related ARDS mortality and duration of mechanical ventilation. Methods The VT4COVID study is a randomized, multi-centric prospective open-labeled, controlled superiority trial. Adult patients admitted in the intensive care unit with COVID-19-related mild to severe ARDS defined by a PaO2/FiO2 ratio ≤ 150 mmHg under invasive mechanical ventilation for less than 48 h, and consent to participate to the study will be eligible. Patients will be randomized into two balanced parallels groups, at a 1:1 ratio. The control group will be ventilated with protective ventilation settings (tidal volume 6 mL kg−1 PBW), and the intervention group will be ventilated with ULTV (tidal volume 4 mL kg−1 PBW). The primary outcome is a composite score based on 90-day all-cause mortality as a prioritized criterion and the number of ventilator-free days at day 60 after inclusion. The randomization list will be stratified by site of recruitment and generated using random blocks of sizes 4 and 6. Data will be analyzed using intention-to-treat principles. Discussion The purpose of this manuscript is to provide primary publication of study protocol to prevent selective reporting of outcomes, data-driven analysis, and to increase transparency. Enrollment of patients in the study is ongoing. Trial registration ClinicalTrials.gov NCT04349618 . Registered on April 16, 2020",mds,True,findable,0,0,0,0,0,2021-10-12T03:37:53.000Z,2021-10-12T03:37:55.000Z,figshare.ars,otjm,"Medicine,Cell Biology,Physiology,FOS: Biological sciences,Biotechnology,Cancer,Mental Health,Computational Biology","[{'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Physiology'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biotechnology'}, {'subject': 'Cancer'}, {'subject': 'Mental Health'}, {'subject': 'Computational Biology'}]",,
+10.6084/m9.figshare.c.5279142,Comparison between regional citrate anticoagulation and heparin for intermittent hemodialysis in ICU patients: a propensity score-matched cohort study,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Regional citrate anticoagulation (RCA) is the gold standard of anticoagulation for continuous renal replacement therapy but is rarely used for intermittent hemodialysis (IHD) in ICU. Few studies assessed the safety and efficacy of RCA during IHD in ICU; however, no data are available comparing RCA to heparin anticoagulation, which are commonly used for IHD. The aim of this study was to assess the efficacy and safety of RCA compared to heparin anticoagulation during IHD. Methods This retrospective single-center cohort study included consecutive ICU patients treated with either heparin anticoagulation (unfractionated or low-molecular-weight heparin) or RCA for IHD from July to September in 2015 and 2017. RCA was performed with citrate infusion according to blood flow and calcium infusion by diffusive influx from dialysate. Using a propensity score analysis, as the primary endpoint we assessed whether RCA improved efficacy, quantified with Kt/V from the ionic dialysance, compared to heparin anticoagulation. The secondary endpoint was safety. Exploratory analyses were performed on the changes in efficacy and safety between the implementation period (2015) and at long term (2017). Results In total, 208 IHD sessions were performed in 56 patients and were compared (124 RCA and 84 heparin coagulation). There was no difference in Kt/V between RCA and heparin (0.95 ± 0.38 vs. 0.89 ± 0.32; p = 0.98). A higher number of circuit clotting (12.9% vs. 2.4%; p = 0.02) and premature interruption resulting from acute high transmembrane pressure (21% vs. 7%; p = 0.02) occurred in the RCA sessions compared to the heparin sessions. In the propensity score-matching analysis, RCA was associated with an increased risk of circuit clotting (absolute differences = 0.10, 95% CI [0.03–0.18]; p = 0.008). There was no difference in efficacy and safety between the two time periods (2015 and 2017). Conclusion RCA with calcium infusion by diffusive influx from dialysate for IHD was easy to implement with stable long-term efficacy and safety but did not improve efficacy and could be associated with an increased risk of circuit clotting compared to heparin anticoagulation in non-selected ICU patients. Randomized trials to determine the best anticoagulation for IHD in ICU patients should be conducted in a variety of settings.",mds,True,findable,0,0,0,0,0,2021-01-23T04:29:23.000Z,2021-01-23T04:29:26.000Z,figshare.ars,otjm,"Space Science,Medicine,Biological Sciences not elsewhere classified,Mathematical Sciences not elsewhere classified,Science Policy,Hematology","[{'subject': 'Space Science'}, {'subject': 'Medicine'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Mathematical Sciences not elsewhere classified'}, {'subject': 'Science Policy'}, {'subject': 'Hematology'}]",,
+10.5281/zenodo.10854246,"Data and codes for ""Chapter 16: Particle-laden gravity currents: the lock-release slumping regime at the laboratory scale""",Zenodo,2024,,Dataset,Creative Commons Attribution 4.0 International,"PALAGRAM Monograph
+
+
+This repository contains the data used in the research paper:
+
+
+
+Gadal C., Schneider J., Bonamy C., Chauchat J., Dossmann Y., Kiesgen de Richter S., Mercier M. J., Naaim-Bouvet F., Rastello M., and Lacaze L. Chapter 16: Particle-laden gravity currents: the lock-release slumping regime at the laboratory scale. Submitted to AGU Monograph.
+
+
+
+
+Repository organization
+
+
+
+
+  palagram_monograph
+  │
+  └───data: data are stored here
+  │   └───input_data: input data as sent by everyone
+  │       └─── ... : NETCDF files
+  │   └───output_data: processed data output by analysis.py (also contains input_data)
+  │       └─── ... : NETCDF files
+  └───analysis:
+      └───analysis.py: analysis code, that reads input_data and writes output_data
+  └───paper: contains source files for article
+  │   └───figures: contains source figures
+  │       └─── ... : PDF files
+  │       └─── figure_scripts: contains figure scripts that reads data in data/output_data and writes figures in paper/figures
+  │            └─── *.py : python scripts for figures
+  │   └─── ... : various files (.tex, .bib, ...)
+  │   └─── main.pdf : article preprint
+
+
+
+ 
+
+
+
+
+Data organization
+
+
+The CSV file dataset_summary.csv offers a summary of all runs and corresponding experimental parameters, allowing for easier access to the data.
+
+The folder data/output_data contains 287 netcdf4 files corresponding to each experimental run used in the paper. For each run, the structure of the NetCDF file is the following:
+
+
+
+
+
+attributes:
+
+
+
+particle_type: particle type used (silica sand, glass beads, etc..)
+
+label: filename
+
+lab: lab where this run has been performed
+
+run_oldID: Old filename, corresponding to the experimental notebook
+
+author: author(s) that acquired this run
+
+setup: setup used to acquire the data. See article.
+
+dataset: Dataset classification of this run, See paper.
+
+
+
+
+
+dimensions(sizes): time(n)
+
+
+
+
+variables(dimensions):
+
+
+
+At(): Atwood number
+
+Fr(): Froude number (adi. initial current velocity)
+
+H0(): initial heavy fluid height inside the lock
+
+H_a(): ambient fluid height outside the lock
+
+L0(): streamwise lock length
+
+L_1(): streamwise tank length after the lock
+
+Re(): Reynolds number
+
+S(): Settling number
+
+St(): Stokes number
+
+T_a(): ambient temperature
+
+T_f(): heavy fluid temperature inside the lock
+
+W0(): crossstream lock width
+
+a(): lock aspect ratio
+
+alpha(): bottom slope
+
+d(): particle diameter
+
+gprime(): specific gravity
+
+lamb(): adi. attenuation parameter
+
+nu_a(): ambient viscosity
+
+nu_f(): heavy fluid lock viscosity
+
+phi(): initial particle volume fraction inside the lock
+
+rho_a(): ambient fluid density
+
+rho_c(): heavy fluid mix density inside the lock
+
+rho_f():
+
+rho_p(): particle density
+
+t('time',): time vector
+
+t0(): characteristic timescale, t0 = L0/u0
+
+u0(): characteristic velocity scale, u0 = sqrt(gprime*H0)
+
+vs(): particle Stokes velocity
+
+x_front('time',): front position vector
+
+
+
+
+Variables can sometimes possess the following attributes:
+
+
+
+unit: corresponding unit
+
+std: error(s) on the given quantity, calculated by error propagation from measurement uncertainties using the uncertainties module (https://pythonhosted.org/uncertainties/) in Python.
+
+comments: comments on the given quantity (definition, formulas, etc ..)
+
+
+
+
+Related works
+
+
+
+
+
+
+Gadal, C., Mercier, M. J., Rastello, M., & Lacaze, L. (2023). Slumping regime in lock-release turbidity currents. Journal of Fluid Mechanics, 974, A4. doi:10.1017/jfm.2023.762
+
+
+
+
+Gadal, C., Mercier, M., Rastello, M., & Lacaze, L. (2023). Data used in 'Slumping regime in lock-release turbidity currents' [Data set]. In Journal of Fluid Mechanics (Vol. 974, p. A4). Zenodo. https://doi.org/10.5281/zenodo.10058946
+
+
+
+
+Schneider, J., Dossmann, Y., Farges, O. et al. Investigation of particle laden gravity currents using the light attenuation technique. Exp Fluids, 64, 23 (2023). doi:10.1007/s00348-022-03562-y
+
+
+
+
+Chauchat, J., Cheng, Z., Nagel, T., Bonamy, C., and Hsu, T.-J. (2017) SedFoam-2.0: a 3-D two-phase flow numerical model for sediment transport, Geosci. Model Dev., 10, 4367-4392, doi:10.5194/gmd-10-4367-2017 and github",api,True,findable,0,0,0,0,1,2024-03-22T14:54:13.000Z,2024-03-22T14:54:14.000Z,cern.zenodo,cern,,,,
+10.5281/zenodo.10864208,NeoGeographyToolkit/StereoPipeline: 2024-03-23-daily-build,Zenodo,2024,,Software,Creative Commons Attribution 4.0 International,Recent additions log: https://stereopipeline.readthedocs.io/en/latest/news.html,api,True,findable,0,0,0,1,0,2024-03-23T17:35:01.000Z,2024-03-23T17:35:01.000Z,cern.zenodo,cern,,,,
+10.6084/m9.figshare.c.5673672,The mitochondrially-localized nucleoside diphosphate kinase D (NME4) is a novel metastasis suppressor,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Mitochondrial nucleoside diphosphate kinase (NDPK-D, NME4, NM23-H4) is a multifunctional enzyme mainly localized in the intermembrane space, bound to the inner membrane. Results We constructed loss-of-function mutants of NDPK-D, lacking either NDP kinase activity or membrane interaction and expressed mutants or wild-type protein in cancer cells. In a complementary approach, we performed depletion of NDPK-D by RNA interference. Both loss-of-function mutations and NDPK-D depletion promoted epithelial-mesenchymal transition and increased migratory and invasive potential. Immunocompromised mice developed more metastases when injected with cells expressing mutant NDPK-D as compared to wild-type. This metastatic reprogramming is a consequence of mitochondrial alterations, including fragmentation and loss of mitochondria, a metabolic switch from respiration to glycolysis, increased ROS generation, and further metabolic changes in mitochondria, all of which can trigger pro-metastatic protein expression and signaling cascades. In human cancer, NME4 expression is negatively associated with markers of epithelial-mesenchymal transition and tumor aggressiveness and a good prognosis factor for beneficial clinical outcome. Conclusions These data demonstrate NME4 as a novel metastasis suppressor gene, the first localizing to mitochondria, pointing to a role of mitochondria in metastatic dissemination.",mds,True,findable,0,0,0,0,0,2021-10-22T04:03:25.000Z,2021-10-22T04:03:27.000Z,figshare.ars,otjm,"Biophysics,Biochemistry,Medicine,Cell Biology,Genetics,FOS: Biological sciences,Molecular Biology,Physiology,Immunology,FOS: Clinical medicine,Developmental Biology,Cancer,Hematology,Infectious Diseases,FOS: Health sciences,Computational Biology","[{'subject': 'Biophysics'}, {'subject': 'Biochemistry'}, {'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Genetics'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Molecular Biology'}, {'subject': 'Physiology'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Developmental Biology'}, {'subject': 'Cancer'}, {'subject': 'Hematology'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Computational Biology'}]",,
+10.5281/zenodo.10829894,silx-kit/silx: 2.0.1: 2024/03/18,Zenodo,2024,,Software,Creative Commons Attribution 4.0 International,"This is a bug fix version.
+
+What's Changed
+
+
+
+silx.io.open: Reverted behavior: open locks HDF5 files (PR #4074, #4084)
+
+Dependencies: Updated to advertise that numpy v2 is not supported (PR #4084)
+
+
+Full Changelog: https://github.com/silx-kit/silx/compare/v2.0.0...v2.0.1",api,True,findable,0,0,0,0,0,2024-03-18T12:34:59.000Z,2024-03-18T12:35:00.000Z,cern.zenodo,cern,,,,
+10.6084/m9.figshare.c.5257892,Factors associated with survival of patients with solid Cancer alive after intensive care unit discharge between 2005 and 2013,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background At intensive care unit (ICU) admission, the issue about prognosis of critically ill cancer patients is of clinical interest, especially after ICU discharge. Our objective was to assess the factors associated with 3- and 6-month survival of ICU cancer survivors. Methods Based on the French OutcomeRea™ database, we included solid cancer patients discharged alive, between December 2005 and November 2013, from the medical ICU of the university hospital in Grenoble, France. Patient characteristics and outcome at 3 and 6 months following ICU discharge were extracted from available database. Results Of the 361 cancer patients with unscheduled admissions, 253 (70%) were discharged alive from ICU. The main primary cancer sites were digestive (31%) and thoracic (26%). The 3- and 6-month mortality rates were 33 and 41%, respectively. Factors independently associated with 6-month mortality included ECOG performance status (ECOG-PS) of 3–4 (OR,3.74; 95%CI: 1.67–8.37), metastatic disease (OR,2.56; 95%CI: 1.34–4.90), admission for cancer progression (OR,2.31; 95%CI: 1.14–4.68), SAPS II of 45 to 58 (OR,4.19; 95%CI: 1.76–9.97), and treatment limitation decision at ICU admission (OR,4.00; 95%CI: 1.64–9.77). Interestingly, previous cancer chemotherapy prior to ICU admission was independently associated with lower 3-month mortality (OR, 0.38; 95%CI: 0.19–0.75). Among patients with an ECOG-PS 0–1 at admission, 70% (n = 66) and 61% (n = 57) displayed an ECOG-PS 0–2 at 3- and 6-months, respectively. At 3 months, 74 (55%) patients received anticancer treatment, 13 (8%) were given exclusive palliative care. Conclusions Factors associated with 6-month mortality are almost the same as those known to be associated with ICU mortality. We highlight that most patients recovered an ECOG-PS of 0–2 at 3 and 6 months, in particular those with a good ECOG-PS at ICU admission and could benefit from an anticancer treatment following ICU discharge.",mds,True,findable,0,0,0,0,0,2021-01-06T04:30:50.000Z,2021-01-06T04:30:53.000Z,figshare.ars,otjm,"Medicine,Microbiology,FOS: Biological sciences,Biotechnology,Chemical Sciences not elsewhere classified,Immunology,FOS: Clinical medicine,Biological Sciences not elsewhere classified,Cancer,Science Policy,Infectious Diseases,FOS: Health sciences","[{'subject': 'Medicine'}, {'subject': 'Microbiology'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biotechnology'}, {'subject': 'Chemical Sciences not elsewhere classified'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Cancer'}, {'subject': 'Science Policy'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}]",,
+10.6084/m9.figshare.c.5282401,Performance of the ROX index to predict intubation in immunocompromised patients receiving high-flow nasal cannula for acute respiratory failure,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Delayed intubation is associated with high mortality. There is a lack of objective criteria to decide the time of intubation. We assessed a recently described combined oxygenation index (ROX index) to predict intubation in immunocompromised patients. The study is a secondary analysis of randomized trials in immunocompromised patients, including all patients who received high-flow nasal cannula (HFNC). The first objective was to evaluate the accuracy of the ROX index to predict intubation for patients with acute respiratory failure. Results In the study, 302 patients received HFNC. Acute respiratory failure was mostly related to pneumonia (n = 150, 49.7%). Within 2 (1–3) days, 115 (38.1%) patients were intubated. The ICU mortality rate was 27.4% (n = 83). At 6 h, the ROX index was lower for patients who needed intubation compared with those who did not [4.79 (3.69–7.01) vs. 6.10 (4.48–8.68), p < 0.001]. The accuracy of the ROX index to predict intubation was poor [AUC = 0.623 (0.557–0.689)], with low performance using the threshold previously found (4.88). In multivariate analysis, a higher ROX index was still independently associated with a lower intubation rate (OR = 0.89 [0.82–0.96], p = 0.04). Conclusion A ROX index greater than 4.88 appears to have a poor ability to predict intubation in immunocompromised patients with acute respiratory failure, although it remains highly associated with the risk of intubation and may be useful to stratify such risk in future studies.",mds,True,findable,0,0,0,0,0,2021-01-27T04:12:42.000Z,2021-01-27T04:12:46.000Z,figshare.ars,otjm,"Medicine,Sociology,FOS: Sociology,Immunology,FOS: Clinical medicine,Biological Sciences not elsewhere classified,Science Policy,Hematology,Virology","[{'subject': 'Medicine'}, {'subject': 'Sociology'}, {'subject': 'FOS: Sociology', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Science Policy'}, {'subject': 'Hematology'}, {'subject': 'Virology'}]",,
+10.6084/m9.figshare.c.4968908,One-year survival in acute stroke patients requiring mechanical ventilation: a multicenter cohort study,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Most prognostic studies in acute stroke patients requiring invasive mechanical ventilation are outdated and have limitations such as single-center retrospective designs. We aimed to study the association of ICU admission factors, including the reason for intubation, with 1-year survival of acute stroke patients requiring mechanical ventilation. Methods We conducted a secondary data use analysis of a prospective multicenter database (14 ICUs) between 1997 and 2016 on consecutive ICU stroke patients requiring mechanical ventilation at admission. We excluded patients with stroke of traumatic origin, subdural hematoma or cerebral venous thrombosis. The primary outcome was survival 1 year after ICU admission. Factors associated with the primary outcome were identified using a multivariable Cox model stratified on inclusion center. Results We identified 419 patients (age 68 [58–76] years, males 60%) with a Glasgow coma score (GCS) of 4 [3–8] at admission. Stroke subtypes were acute ischemic stroke (AIS, 46%), intracranial hemorrhage (ICH, 42%) and subarachnoid hemorrhage (SAH, 12%). At 1 year, 96 (23%) patients were alive. Factors independently associated with decreased 1-year survival were ICH and SAH stroke subtypes, a lower GCS score at admission, a higher non-neurological SOFA score. Conversely, patients receiving acute-phase therapy had improved 1-year survival. Intubation for acute respiratory failure or coma was associated with comparable survival hazard ratios, whereas intubation for seizure was not associated with a worse prognosis than for elective procedure. Survival did not improve over the study period, but patients included in the most recent period had more comorbidities and presented higher severity scores at admission. Conclusions In acute stroke patients requiring mechanical ventilation, the reason for intubation and the opportunity to receive acute-phase stroke therapy were independently associated with 1-year survival. These variables could assist in the decision process regarding the initiation of mechanical ventilation in acute stroke patients.",mds,True,findable,0,0,1,0,0,2020-05-08T04:01:32.000Z,2020-05-08T04:01:33.000Z,figshare.ars,otjm,"Medicine,Cell Biology,Neuroscience,Biotechnology,Immunology,FOS: Clinical medicine,Biological Sciences not elsewhere classified,Science Policy,Hematology","[{'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Neuroscience'}, {'subject': 'Biotechnology'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Science Policy'}, {'subject': 'Hematology'}]",,
+10.5281/zenodo.10854247,"Data and codes for ""Chapter 16: Particle-laden gravity currents: the lock-release slumping regime at the laboratory scale""",Zenodo,2024,,Dataset,Creative Commons Attribution 4.0 International,"PALAGRAM Monograph
+
+
+This repository contains the data used in the research paper:
+
+
+
+Gadal C., Schneider J., Bonamy C., Chauchat J., Dossmann Y., Kiesgen de Richter S., Mercier M. J., Naaim-Bouvet F., Rastello M., and Lacaze L. Chapter 16: Particle-laden gravity currents: the lock-release slumping regime at the laboratory scale. Submitted to AGU Monograph.
+
+
+
+
+Repository organization
+
+
+
+
+  palagram_monograph
+  │
+  └───data: data are stored here
+  │   └───input_data: input data as sent by everyone
+  │       └─── ... : NETCDF files
+  │   └───output_data: processed data output by analysis.py (also contains input_data)
+  │       └─── ... : NETCDF files
+  └───analysis:
+      └───analysis.py: analysis code, that reads input_data and writes output_data
+  └───paper: contains source files for article
+  │   └───figures: contains source figures
+  │       └─── ... : PDF files
+  │       └─── figure_scripts: contains figure scripts that reads data in data/output_data and writes figures in paper/figures
+  │            └─── *.py : python scripts for figures
+  │   └─── ... : various files (.tex, .bib, ...)
+  │   └─── main.pdf : article preprint
+
+
+
+ 
+
+
+
+
+Data organization
+
+
+The CSV file dataset_summary.csv offers a summary of all runs and corresponding experimental parameters, allowing for easier access to the data.
+
+The folder data/output_data contains 287 netcdf4 files corresponding to each experimental run used in the paper. For each run, the structure of the NetCDF file is the following:
+
+
+
+
+
+attributes:
+
+
+
+particle_type: particle type used (silica sand, glass beads, etc..)
+
+label: filename
+
+lab: lab where this run has been performed
+
+run_oldID: Old filename, corresponding to the experimental notebook
+
+author: author(s) that acquired this run
+
+setup: setup used to acquire the data. See article.
+
+dataset: Dataset classification of this run, See paper.
+
+
+
+
+
+dimensions(sizes): time(n)
+
+
+
+
+variables(dimensions):
+
+
+
+At(): Atwood number
+
+Fr(): Froude number (adi. initial current velocity)
+
+H0(): initial heavy fluid height inside the lock
+
+H_a(): ambient fluid height outside the lock
+
+L0(): streamwise lock length
+
+L_1(): streamwise tank length after the lock
+
+Re(): Reynolds number
+
+S(): Settling number
+
+St(): Stokes number
+
+T_a(): ambient temperature
+
+T_f(): heavy fluid temperature inside the lock
+
+W0(): crossstream lock width
+
+a(): lock aspect ratio
+
+alpha(): bottom slope
+
+d(): particle diameter
+
+gprime(): specific gravity
+
+lamb(): adi. attenuation parameter
+
+nu_a(): ambient viscosity
+
+nu_f(): heavy fluid lock viscosity
+
+phi(): initial particle volume fraction inside the lock
+
+rho_a(): ambient fluid density
+
+rho_c(): heavy fluid mix density inside the lock
+
+rho_f():
+
+rho_p(): particle density
+
+t('time',): time vector
+
+t0(): characteristic timescale, t0 = L0/u0
+
+u0(): characteristic velocity scale, u0 = sqrt(gprime*H0)
+
+vs(): particle Stokes velocity
+
+x_front('time',): front position vector
+
+
+
+
+Variables can sometimes possess the following attributes:
+
+
+
+unit: corresponding unit
+
+std: error(s) on the given quantity, calculated by error propagation from measurement uncertainties using the uncertainties module (https://pythonhosted.org/uncertainties/) in Python.
+
+comments: comments on the given quantity (definition, formulas, etc ..)
+
+
+
+
+Related works
+
+
+
+
+
+
+Gadal, C., Mercier, M. J., Rastello, M., & Lacaze, L. (2023). Slumping regime in lock-release turbidity currents. Journal of Fluid Mechanics, 974, A4. doi:10.1017/jfm.2023.762
+
+
+
+
+Gadal, C., Mercier, M., Rastello, M., & Lacaze, L. (2023). Data used in 'Slumping regime in lock-release turbidity currents' [Data set]. In Journal of Fluid Mechanics (Vol. 974, p. A4). Zenodo. https://doi.org/10.5281/zenodo.10058946
+
+
+
+
+Schneider, J., Dossmann, Y., Farges, O. et al. Investigation of particle laden gravity currents using the light attenuation technique. Exp Fluids, 64, 23 (2023). doi:10.1007/s00348-022-03562-y
+
+
+
+
+Chauchat, J., Cheng, Z., Nagel, T., Bonamy, C., and Hsu, T.-J. (2017) SedFoam-2.0: a 3-D two-phase flow numerical model for sediment transport, Geosci. Model Dev., 10, 4367-4392, doi:10.5194/gmd-10-4367-2017 and github",api,True,findable,0,0,0,1,0,2024-03-22T14:54:13.000Z,2024-03-22T14:54:13.000Z,cern.zenodo,cern,,,,
+10.5281/zenodo.10852247,A set of CAD assembly test models to evaluate component interfaces using CAD assembly modules,Zenodo,2024,,Dataset,Creative Commons Attribution 4.0 International,"Set of 3D CAD assembly models in STEP AP 203 format.
+
+Assembly test models are devoted to evaluations of interfaces between components. The interfaces can be of type surface, rectilinear contacts, circular contacts, or punctual contacts.
+
+The content and use of the test models are described into the pdf document: A set of CAD assembly test models to evaluate component interfaces using CAD assembly modules, available with the test models.
+
+ ",api,True,findable,0,0,0,0,0,2024-03-22T08:28:20.000Z,2024-03-22T08:28:20.000Z,cern.zenodo,cern,,,,
+10.6084/m9.figshare.c.5453885,Mental health and stress among ICU healthcare professionals in France according to intensity of the COVID-19 epidemic,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background We investigated the impact of the COVID-19 crisis on mental health of professionals working in the intensive care unit (ICU) according to the intensity of the epidemic in France. Methods This cross-sectional survey was conducted in 77 French hospitals from April 22 to May 13 2020. All ICU frontline healthcare workers were eligible. The primary endpoint was the mental health, assessed using the 12-item General Health Questionnaire. Sources of stress during the crisis were assessed using the Perceived Stressors in Intensive Care Units (PS-ICU) scale. Epidemic intensity was defined as high or low for each region based on publicly available data from Santé Publique France. Effects were assessed using linear mixed models, moderation and mediation analyses. Results In total, 2643 health professionals participated; 64.36% in high-intensity zones. Professionals in areas with greater epidemic intensity were at higher risk of mental health issues (p < 0.001), and higher levels of overall perceived stress (p < 0.001), compared to low-intensity zones. Factors associated with higher overall perceived stress were female sex (B = 0.13; 95% confidence interval [CI] = 0.08–0.17), having a relative at risk of COVID-19 (B = 0.14; 95%-CI = 0.09–0.18) and working in high-intensity zones (B = 0.11; 95%-CI = 0.02–0.20). Perceived stress mediated the impact of the crisis context on mental health (B = 0.23, 95%-CI = 0.05, 0.41) and the impact of stress on mental health was moderated by positive thinking, b = − 0.32, 95% CI = − 0.54, − 0.11. Conclusion COVID-19 negatively impacted the mental health of ICU professionals. Professionals working in zones where the epidemic was of high intensity were significantly more affected, with higher levels of perceived stress. This study is supported by a grant from the French Ministry of Health (PHRC-COVID 2020).",mds,True,findable,0,0,0,0,0,2021-06-05T03:28:23.000Z,2021-06-05T03:28:24.000Z,figshare.ars,otjm,"Medicine,Biotechnology,Biological Sciences not elsewhere classified,Science Policy","[{'subject': 'Medicine'}, {'subject': 'Biotechnology'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Science Policy'}]",,
+10.6084/m9.figshare.c.5999772,Impact of prolonged requirement for insulin on 90-day mortality in critically ill patients without previous diabetic treatments: a post hoc analysis of the CONTROLING randomized control trial,figshare,2022,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Stress hyperglycemia can persist during an intensive care unit (ICU) stay and result in prolonged requirement for insulin (PRI). The impact of PRI on ICU patient outcomes is not known. We evaluated the relationship between PRI and Day 90 mortality in ICU patients without previous diabetic treatments. Methods This is a post hoc analysis of the CONTROLING trial, involving 12 French ICUs. Patients in the personalized glucose control arm with an ICU length of stay ≥ 5 days and who had never previously received diabetic treatments (oral drugs or insulin) were included. Personalized blood glucose targets were estimated on their preadmission usual glycemia as estimated by their glycated A1c hemoglobin (HbA1C). PRI was defined by insulin requirement. The relationship between PRI on Day 5 and 90-day mortality was assessed by Cox survival models with inverse probability of treatment weighting (IPTW). Glycemic control was defined as at least one blood glucose value below the blood glucose target value on Day 5. Results A total of 476 patients were included, of whom 62.4% were male, with a median age of 66 (54–76) years. Median values for SAPS II and HbA1C were 50 (37.5–64) and 5.7 (5.4–6.1)%, respectively. PRI was observed in 364/476 (72.5%) patients on Day 5. 90-day mortality was 23.1% in the whole cohort, 25.3% in the PRI group and 16.1% in the non-PRI group (p < 0.01). IPTW analysis showed that PRI on Day 5 was not associated with Day 90 mortality (IPTWHR = 1.22; CI 95% 0.84–1.75; p = 0.29), whereas PRI without glycemic control was associated with an increased risk of death at Day 90 (IPTWHR = 3.34; CI 95% 1.26–8.83; p < 0.01). Conclusion In ICU patients without previous diabetic treatments, only PRI without glycemic control on Day 5 was associated with an increased risk of death. Additional studies are required to determine the factors contributing to these results.",mds,True,findable,0,0,0,0,0,2022-05-17T06:14:08.000Z,2022-05-17T06:14:09.000Z,figshare.ars,otjm,"Medicine,Cell Biology,Genetics,FOS: Biological sciences,Physiology,Pharmacology,Biotechnology,Chemical Sciences not elsewhere classified,Infectious Diseases,FOS: Health sciences,Virology","[{'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Genetics'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Physiology'}, {'subject': 'Pharmacology'}, {'subject': 'Biotechnology'}, {'subject': 'Chemical Sciences not elsewhere classified'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Virology'}]",,
+10.5281/zenodo.10782399,Bounding the contribution of leads to sea spray aerosol in the high Arctic,Zenodo,2024,,Model,Creative Commons Attribution 4.0 International,,api,True,findable,0,0,0,0,0,2024-03-20T17:38:13.000Z,2024-03-20T17:38:13.000Z,cern.zenodo,cern,,,,
+10.6084/m9.figshare.c.5013470,Mucormycosis in intensive care unit: surgery is a major prognostic factor in patients with hematological malignancy,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background Mucormycosis is an invasive fungal infection, with an increasing incidence especially in patients with hematological malignancies. Its prognosis is poor because of its high invasive power and its intrinsic low susceptibility to antifungal agents. We aimed to describe the epidemiology of mucormycosis in intensive care units (ICU) and evaluate the outcomes. We performed a retrospective multi-center study in 16 French ICUs between 2008 and 2017. We compared the patients who survived in ICU and the patients who did not to identify factors associated with ICU survival. Then, we focused on the subgroup of patients with hematological malignancies. Results Mucormycosis was diagnosed in 74 patients during the study period. Among them, 60 patients (81%) were immunocompromised: 41 had hematological malignancies, 9 were solid organ transplant recipients, 31 received long-term steroids, 11 had diabetes, 24 had malnutrition. Only 21 patients survived to ICU stay (28.4%) with a median survival of 22 days (Q1–Q3 = 9–106) and a survival rate at day 28 and day 90, respectively, of 35.1% and 26.4%. Survivors were significantly younger (p = 0.001), with less frequently hematological malignancies (p = 0.02), and less malnutrition (p = 0.05). Median survival in patients with hematological malignancies (n = 41) was 15 days (Q1–Q3 = 5–23.5 days). In this subgroup, curative surgery was a major factor associated with survival in multivariate analysis (odds ratio = 0.71, [0.45–0.97], p < 0.001). Conclusion Overall prognosis of mucormycosis in ICU remains poor, especially in patients with hematological malignancies. In this subgroup of patients, a therapeutic strategy including curative surgery was the main factor associated with survival.",mds,True,findable,0,0,1,0,0,2020-06-09T08:09:44.000Z,2020-06-09T08:09:44.000Z,figshare.ars,otjm,"Medicine,Cell Biology,Genetics,FOS: Biological sciences,Biotechnology,Biological Sciences not elsewhere classified,Cancer,Science Policy,Hematology","[{'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Genetics'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biotechnology'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Cancer'}, {'subject': 'Science Policy'}, {'subject': 'Hematology'}]",,
+10.6084/m9.figshare.c.5394711,Rare deleterious mutations of HNRNP genes result in shared neurodevelopmental disorders,figshare,2021,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background With the increasing number of genomic sequencing studies, hundreds of genes have been implicated in neurodevelopmental disorders (NDDs). The rate of gene discovery far outpaces our understanding of genotype–phenotype correlations, with clinical characterization remaining a bottleneck for understanding NDDs. Most disease-associated Mendelian genes are members of gene families, and we hypothesize that those with related molecular function share clinical presentations. Methods We tested our hypothesis by considering gene families that have multiple members with an enrichment of de novo variants among NDDs, as determined by previous meta-analyses. One of these gene families is the heterogeneous nuclear ribonucleoproteins (hnRNPs), which has 33 members, five of which have been recently identified as NDD genes (HNRNPK, HNRNPU, HNRNPH1, HNRNPH2, and HNRNPR) and two of which have significant enrichment in our previous meta-analysis of probands with NDDs (HNRNPU and SYNCRIP). Utilizing protein homology, mutation analyses, gene expression analyses, and phenotypic characterization, we provide evidence for variation in 12 HNRNP genes as candidates for NDDs. Seven are potentially novel while the remaining genes in the family likely do not significantly contribute to NDD risk. Results We report 119 new NDD cases (64 de novo variants) through sequencing and international collaborations and combined with published clinical case reports. We consider 235 cases with gene-disruptive single-nucleotide variants or indels and 15 cases with small copy number variants. Three hnRNP-encoding genes reach nominal or exome-wide significance for de novo variant enrichment, while nine are candidates for pathogenic mutations. Comparison of HNRNP gene expression shows a pattern consistent with a role in cerebral cortical development with enriched expression among radial glial progenitors. Clinical assessment of probands (n = 188–221) expands the phenotypes associated with HNRNP rare variants, and phenotypes associated with variation in the HNRNP genes distinguishes them as a subgroup of NDDs. Conclusions Overall, our novel approach of exploiting gene families in NDDs identifies new HNRNP-related disorders, expands the phenotypes of known HNRNP-related disorders, strongly implicates disruption of the hnRNPs as a whole in NDDs, and supports that NDD subtypes likely have shared molecular pathogenesis. To date, this is the first study to identify novel genetic disorders based on the presence of disorders in related genes. We also perform the first phenotypic analyses focusing on related genes. Finally, we show that radial glial expression of these genes is likely critical during neurodevelopment. This is important for diagnostics, as well as developing strategies to best study these genes for the development of therapeutics.",mds,True,findable,0,0,0,0,0,2021-04-20T03:40:15.000Z,2021-04-20T03:40:17.000Z,figshare.ars,otjm,"Genetics,FOS: Biological sciences","[{'subject': 'Genetics'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}]",,
+10.6084/m9.figshare.c.5129698,Association between Neu5Gc carbohydrate and serum antibodies against it provides the molecular link to cancer: French NutriNet-Santé study,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background High consumption of red and processed meat is commonly associated with increased cancer risk, particularly colorectal cancer. Antibodies against the red meat-derived carbohydrate N-glycolylneuraminic acid (Neu5Gc) exacerbate cancer in “human-like” mice. Human anti-Neu5Gc IgG and red meat are both independently proposed to increase cancer risk, yet how diet affects these antibodies is largely unknown. Methods We used world global data to demonstrate that colorectal cancer incidence and mortality are associated with increased national meat consumption. In a well-defined large cohort, we used glycomics to measure daily Neu5Gc intake from red meat and dairy, and investigated serum as well as affinity-purified anti-Neu5Gc antibodies. Based on 24-h dietary records, daily Neu5Gc intake was calculated for 19,621 subjects aged ≥ 18 years of the NutriNet-Santé study. Serum and affinity-purified anti-Neu5Gc antibodies were evaluated by ELISA and glycan microarrays in representative 120 individuals, each with at least eighteen 24-h dietary records (aged 45–60, Q1–Q4; aged > 60, Q1 and Q4; 10 men/women per quartile). Results We found that high-Neu5Gc diet, gender, and age affect the specificity, levels, and repertoires of anti-Neu5Gc IgG immune responses, but not their affinity. Men consumed more Neu5Gc than women, mostly from red meat (p = 0.0015), and exhibited higher overall serum anti-Neu5Gc IgG levels by ELISA (3.94 ng/μl versus 2.22 ng/μl, respectively; p = 0.039). Detailed glycan microarray analysis against 56 different glycans revealed high Neu5Gc-specificity with increased anti-Neu5Gc IgG and altered repertoires, associated with higher consumption of Neu5Gc from red meat and cow dairy. Affinity purification of serum anti-Neu5Gc antibodies revealed increased levels and biased array repertoire patterns, without an increase in antibody affinity, in individuals consuming higher Neu5Gc levels. Furthermore, in a high-meat diet, antibody diversity patterns on glycan microarrays shifted towards Neu5Gcα3-linked glycans, increasing the α3/α6-glycans ratio score. Conclusions We found a clear link between the levels and repertoire of serum anti-Neu5Gc IgG and Neu5Gc intake from red meat and dairy. These precise rational methodologies allowed to develop a Gcemic index to simplify the assessment of Neu5Gc in foods that could potentially be adapted for dietary recommendations to reduce cancer risk.",mds,True,findable,0,0,0,0,0,2020-09-23T03:27:16.000Z,2020-09-23T03:27:17.000Z,figshare.ars,otjm,"Biochemistry,Neuroscience,Physiology,FOS: Biological sciences,Biotechnology,Chemical Sciences not elsewhere classified,Ecology,Immunology,FOS: Clinical medicine,Mathematical Sciences not elsewhere classified,Cancer,Science Policy,Infectious Diseases,FOS: Health sciences","[{'subject': 'Biochemistry'}, {'subject': 'Neuroscience'}, {'subject': 'Physiology'}, {'subject': 'FOS: Biological sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Biotechnology'}, {'subject': 'Chemical Sciences not elsewhere classified'}, {'subject': 'Ecology'}, {'subject': 'Immunology'}, {'subject': 'FOS: Clinical medicine', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}, {'subject': 'Mathematical Sciences not elsewhere classified'}, {'subject': 'Cancer'}, {'subject': 'Science Policy'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}]",,
+10.6084/m9.figshare.c.5114735,Expert consensus-based clinical practice guidelines management of intravascular catheters in the intensive care unit,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract The French Society of Intensive Care Medicine (SRLF), jointly with the French-Speaking Group of Paediatric Emergency Rooms and Intensive Care Units (GFRUP) and the French-Speaking Association of Paediatric Surgical Intensivists (ADARPEF), worked out guidelines for the management of central venous catheters (CVC), arterial catheters and dialysis catheters in intensive care unit. For adult patients: Using GRADE methodology, 36 recommendations for an improved catheter management were produced by the 22 experts. Recommendations regarding catheter-related infections’ prevention included the preferential use of subclavian central vein (GRADE 1), a one-step skin disinfection(GRADE 1) using 2% chlorhexidine (CHG)-alcohol (GRADE 1), and the implementation of a quality of care improvement program. Antiseptic- or antibiotic-impregnated CVC should likely not be used (GRADE 2, for children and adults). Catheter dressings should likely not be changed before the 7th day, except when the dressing gets detached, soiled or impregnated with blood (GRADE 2− adults). CHG dressings should likely be used (GRADE 2+). For adults and children, ultrasound guidance should be used to reduce mechanical complications in case of internal jugular access (GRADE 1), subclavian access (Grade 2) and femoral venous, arterial radial and femoral access (Expert opinion). For children, an ultrasound-guided supraclavicular approach of the brachiocephalic vein was recommended to reduce the number of attempts for cannulation and mechanical complications. Based on scarce publications on diagnostic and therapeutic strategies and on their experience (expert opinion), the panel proposed definitions, and therapeutic strategies.",mds,True,findable,0,0,0,0,0,2020-09-08T03:45:47.000Z,2020-09-08T03:45:49.000Z,figshare.ars,otjm,"Medicine,Cell Biology,Environmental Sciences not elsewhere classified,Biological Sciences not elsewhere classified,Marine Biology,Science Policy,Infectious Diseases,FOS: Health sciences","[{'subject': 'Medicine'}, {'subject': 'Cell Biology'}, {'subject': 'Environmental Sciences not elsewhere classified'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Marine Biology'}, {'subject': 'Science Policy'}, {'subject': 'Infectious Diseases'}, {'subject': 'FOS: Health sciences', 'schemeUri': 'http://www.oecd.org/science/inno/38235147.pdf', 'subjectScheme': 'Fields of Science and Technology (FOS)'}]",,
+10.6084/m9.figshare.c.5226946,Impact of advance directives on the variability between intensivists in the decisions to forgo life-sustaining treatment,figshare,2020,,Collection,Creative Commons Attribution 4.0 International,"Abstract Background There is wide variability between intensivists in the decisions to forgo life-sustaining treatment (DFLST). Advance directives (ADs) allow patients to communicate their end-of-life wishes to physicians. We assessed whether ADs reduced variability in DFLSTs between intensivists. Methods We conducted a multicenter, prospective, simulation study. Eight patients expressed their wishes in ADs after being informed about DFLSTs by an intensivist-investigator. The participating intensivists answered ten questions about the DFLSTs of each patient in two scenarios, referring to patients’ characteristics without ADs (round 1) and then with (round 2). DFLST score ranged from 0 (no-DFLST) to 10 (DFLST for all questions). The main outcome was variability in DFLSTs between intensivists, expressed as relative standard deviation (RSD). Results A total of 19,680 decisions made by 123 intensivists from 27 ICUs were analyzed. The DFLST score was higher with ADs than without (6.02 95% CI [5.85; 6.19] vs 4.92 95% CI [4.75; 5.10], p < 0.001). High inter-intensivist variability did not change with ADs (RSD: 0.56 (round 1) vs 0.46 (round 2), p = 0.84). Inter-intensivist agreement on DFLSTs was weak with ADs (intra-class correlation coefficient: 0.28). No factor associated with DFLSTs was identified. A qualitative analysis of ADs showed focus on end-of-life wills, unwanted things and fear of pain. Conclusions ADs increased the DFLST rate but did not reduce variability between the intensivists. In the decision-making process using ADs, the intensivist’s decision took priority. Further research is needed to improve the matching of the physicians’ decision with the patient’s wishes. Trial registration ClinicalTrials.gov Identifier: NCT03013530. Registered 6 January 2017; https://clinicaltrials.gov/ct2/show/NCT03013530 .",mds,True,findable,0,0,0,0,0,2020-12-03T04:34:09.000Z,2020-12-03T04:34:14.000Z,figshare.ars,otjm,"Cell Biology,Biotechnology,Biological Sciences not elsewhere classified,Science Policy,Mental Health","[{'subject': 'Cell Biology'}, {'subject': 'Biotechnology'}, {'subject': 'Biological Sciences not elsewhere classified'}, {'subject': 'Science Policy'}, {'subject': 'Mental Health'}]",,
+10.5281/zenodo.10782398,Bounding the contribution of leads to sea spray aerosol in the high Arctic,Zenodo,2024,,Model,Creative Commons Attribution 4.0 International,,api,True,findable,0,0,0,0,1,2024-03-20T17:38:13.000Z,2024-03-20T17:38:13.000Z,cern.zenodo,cern,,,,