cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17702492.v1
title: Supplementary Material for: The Dynamics of Circulating Heparin-Binding Protein: Implications for Its Use as a Biomarker

description: Heparin-binding protein (HBP) is a promising biomarker for the development and severity of sepsis. To guide its use, it is important to understand the factors that could lead to false-positive or negative results, such as inappropriate release and inadequate clearance of HBP. HBP is presumably released only by neutrophils, and the organs responsible for its elimination are unknown. In this study, we aimed to determine whether non-neutrophil cells can be a source of circulating HBP and which organs are responsible for its removal. We found that in two cohorts of neutropenic patients, 12% and 19% of patients in each cohort, respectively, had detectable plasma HBP levels. In vitro, three leukemia-derived monocytic cell lines and healthy CD14+ monocytes constitutively released detectable levels of HBP. When HBP was injected intravenously in rats, we found that plasma levels of HBP decreased rapidly, with a distribution half-life below 10 min and an elimination half-life of 1–2 h. We measured HBP levels in the liver, spleen, kidneys, lungs, and urine using both ELISA and immunofluorescence quantitation, and found that the majority of HBP was present in the liver, and a small amount was present in the spleen. Immunofluorescence imaging indicated that HBP is associated mainly with hepatocytes in the liver and monocytes/macrophages in the spleen. The impact of hematologic malignancies and liver diseases on plasma HBP levels should be explored further in clinical studies.
DOI: 10.25387/g3.15066420
title: Supplemental Material for Bertho et al., 2021

description: Genotype/phenotype ratios based on PCR assay of exon 2, intron 2 and exon 3 for <i>sdY ­</i>amplification in male and female Chinook salmon from three crosses: normal family 84 x B; XY family 126xD; XY family 118xC @font-face {font-family:"Cambria Math"; panose-1:2 4 5 3 5 4 6 3 2 4; mso-font-charset:0; mso-generic-font-family:roman; mso-font-pitch:variable; mso-font-signature:-536870145 1107305727 0 0 415 0;}@font-face {font-family:Calibri; panose-1:2 15 5 2 2 2 4 3 2 4; mso-font-charset:0; mso-generic-font-family:swiss; mso-font-pitch:variable; mso-font-signature:-469750017 -1073732485 9 0 511 0;}p.MsoNormal, li.MsoNormal, div.MsoNormal {mso-style-unhide:no; mso-style-qformat:yes; mso-style-parent:""; margin-top:0cm; margin-right:0cm; margin-bottom:10.0pt; margin-left:0cm; line-height:115%; mso-pagination:widow-orphan; font-size:11.0pt; font-family:"Calibri",sans-serif; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin; mso-bidi-font-family:"Times New Roman"; mso-bidi-theme-font:minor-bidi; mso-fareast-language:EN-US;}.MsoChpDefault {mso-style-type:export-only; mso-default-props:yes; font-size:11.0pt; mso-ansi-font-size:11.0pt; mso-bidi-font-size:11.0pt; font-family:"Calibri",sans-serif; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin; mso-bidi-font-family:"Times New Roman"; mso-bidi-theme-font:minor-bidi; mso-fareast-language:EN-US;}.MsoPapDefault {mso-style-type:export-only; margin-bottom:10.0pt; line-height:115%;}div.WordSection1 {page:WordSection1;}
DOI: 10.25387/g3.15066420.v1
title: Supplemental Material for Bertho et al., 2021

description: Genotype/phenotype ratios based on PCR assay of exon 2, intron 2 and exon 3 for <i>sdY ­</i>amplification in male and female Chinook salmon from three crosses: normal family 84 x B; XY family 126xD; XY family 118xC @font-face {font-family:"Cambria Math"; panose-1:2 4 5 3 5 4 6 3 2 4; mso-font-charset:0; mso-generic-font-family:roman; mso-font-pitch:variable; mso-font-signature:-536870145 1107305727 0 0 415 0;}@font-face {font-family:Calibri; panose-1:2 15 5 2 2 2 4 3 2 4; mso-font-charset:0; mso-generic-font-family:swiss; mso-font-pitch:variable; mso-font-signature:-469750017 -1073732485 9 0 511 0;}p.MsoNormal, li.MsoNormal, div.MsoNormal {mso-style-unhide:no; mso-style-qformat:yes; mso-style-parent:""; margin-top:0cm; margin-right:0cm; margin-bottom:10.0pt; margin-left:0cm; line-height:115%; mso-pagination:widow-orphan; font-size:11.0pt; font-family:"Calibri",sans-serif; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin; mso-bidi-font-family:"Times New Roman"; mso-bidi-theme-font:minor-bidi; mso-fareast-language:EN-US;}.MsoChpDefault {mso-style-type:export-only; mso-default-props:yes; font-size:11.0pt; mso-ansi-font-size:11.0pt; mso-bidi-font-size:11.0pt; font-family:"Calibri",sans-serif; mso-ascii-font-family:Calibri; mso-ascii-theme-font:minor-latin; mso-fareast-font-family:Calibri; mso-fareast-theme-font:minor-latin; mso-hansi-font-family:Calibri; mso-hansi-theme-font:minor-latin; mso-bidi-font-family:"Times New Roman"; mso-bidi-theme-font:minor-bidi; mso-fareast-language:EN-US;}.MsoPapDefault {mso-style-type:export-only; margin-bottom:10.0pt; line-height:115%;}div.WordSection1 {page:WordSection1;}
DOI: 10.6084/m9.figshare.17702324.v1
title: Microrheology Data.xlsx

description: Mean-squared displacements (MSDs) and power-law coefficient (fluidity) data for the esophageal squamous cell carcinoma (WHCO1) cells of South African origin treated with paclitaxel (PTX), ethanol (ETH) and the untreated cells (UNT).<br>The data was analyzed to determine the effect of paclitaxel treatment on the intracellular stiffness of human esophageal squamous cell carcinoma of South African origin in 2D and 3D.<br>
DOI: 10.6084/m9.figshare.17702324
title: Microrheology Data.xlsx

description: Mean-squared displacements (MSDs) and power-law coefficient (fluidity) data for the esophageal squamous cell carcinoma (WHCO1) cells of South African origin treated with paclitaxel (PTX), ethanol (ETH) and the untreated cells (UNT).<br>The data was analyzed to determine the effect of paclitaxel treatment on the intracellular stiffness of human esophageal squamous cell carcinoma of South African origin in 2D and 3D.<br>
DOI: 10.5281/zenodo.5809113
title: Input structures and files to benchmark CO2 fixation in Rubisco with projector-based embedding electronic structure calculations

description: Structures of reactant, transition state and products in the enzyme RuBisCo used to correct the activation and reaction free energies. Molpro input files used in the projector-based embedding calculations are provided. The same holds for the calculations involving the Zn cation.
DOI: 10.34740/kaggle/dsv/2983620
title: COVID Vaccination in World (updated daily)
DOI: 10.5281/zenodo.5808991
title: Jemma Metadata Methods

description: Jemma Metadata Methods &gt; file: Jemma_Metadata_Methods.csv<br> &gt; size: 2.8 GB<br> &gt; num_rows: 8,551,217<br> &gt; columns: project_id, package_id, class_id, method_id, method_path, method_name, start_line, end_line, method_signature
DOI: 10.5281/zenodo.5809105
title: PyVOLCANS: A Python package to flexibly explore similarities and differences between volcanic systems

description: Python tool to identify analogue volcanoes via VOLCANS. The main goal of PyVOLCANS is to help alleviate data-scarcity issues in volcanology, and contribute to developments in a range of topics, including (but not limited to): quantitative volcanic hazard assessment at local to global scales, investigation of magmatic and volcanic processes, and even teaching and scientific outreach. We hope that future users of PyVOLCANS will include any volcano scientist or enthusiast with an interest in exploring the similarities and differences between volcanic systems worldwide. Please visit our wiki pages for more information.
DOI: 10.5281/zenodo.5809104
title: PyVOLCANS: A Python package to flexibly explore similarities and differences between volcanic systems

description: Python tool to identify analogue volcanoes via VOLCANS. The main goal of PyVOLCANS is to help alleviate data-scarcity issues in volcanology, and contribute to developments in a range of topics, including (but not limited to): quantitative volcanic hazard assessment at local to global scales, investigation of magmatic and volcanic processes, and even teaching and scientific outreach. We hope that future users of PyVOLCANS will include any volcano scientist or enthusiast with an interest in exploring the similarities and differences between volcanic systems worldwide. Please visit our wiki pages for more information.
DOI: 10.5281/zenodo.5809109
title: bbbbq_article_issue_157

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.5281/zenodo.5809119
title: Weissflogia rhopalogaster decontaminated FSCR

description: .
DOI: 10.5281/zenodo.5809118
title: Weissflogia rhopalogaster decontaminated FSCR

description: .
DOI: 10.5283/epub.35555
title: data archiv "Bayesian reasoning - Study 1 and Study 2"
DOI: 10.5281/zenodo.5809108
title: bbbbq_article_issue_157

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.5281/zenodo.5809121
title: Dataset related to article "New composite physico-chemical indicators constructed by Bayesian inference for water quality monitoring"

description: These dataset are associated with the paper being submitted entitled: <strong>New composite physico-chemical indicators constructed by Bayesian inference for water quality monitoring.</strong> Data collection covered an 8-year period divided into two sets of years: 2002 to 2006 and 2014 to 2016. All data were acquired from several comparable scientific studies using the same methods (AFNOR,1997). Imputation of missing data was performed to complete this dataset using the non-parametric "missForest" algorithm for mixed-type data. Physico-chemical parameters were extracted from publications (Gnohossou, 2006; Odountan et al., 2019, Zandagba et al., 2016a, 2016b). 17 variables were measured: water temperature, transparency, turbidity, conductivity, salinity, pH, dissolved oxygen (DO), BOD, COD, Kjeldahl nitrogen (TKN), ammonium , nitrates , nitrites , dry organic matter (DM) content, orthophosphates, total phosphorus (TP), suspended solids (SS). The geographical distribution of the sampling points is made to cover the whole Nokoué lagoon complex. A total of 20 sampling points were surveyed. The parameters were measured according to the four seasons of the year and/or at the succession of high water, low water, high water, and low water-stretch transitions. Nine driving forces described as factors likely to induce pressures were retained to explain the physico-chemical characteristics of the Nokoué and complete this data set. The data resulting from the land use maps and relative to the distances between the considered stations and the tributaries can be improved in the future (Lead to other versions of this data set). As natural forcing variables, we have the sampling years, the seasons (SWS: short wet season or flood period; SDS: short dry season; LWS: long wet season; LDS: long dry season), the average monthly water level (MAWL) and the average wind speed (AWS), which is important in the context of Nokoué... **Minor modifications<br> -Modification of the name of the variables of the initial dataset<br> -Modification of the name of the original dataset (lac_Nokoue.csv)<br> - Added the dataset used for the article being submitted (lac_Nokoue.csv)
description: *lac_Nokoue_brute : Real data ; *lac_Nokoue_missForest : Data generated after imputation from the missForest algorithm; *lac_Nokoue : dataset used for the article being submitted
DOI: 10.5281/zenodo.5809125
title: bbbq_1_smart

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.5281/zenodo.5809124
title: bbbq_1_smart

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.5281/zenodo.5809107
title: psittacara_chloropterus_decontaminated_FSCR

description: .
DOI: 10.5281/zenodo.5809106
title: psittacara_chloropterus_decontaminated_FSCR

description: .
DOI: 10.5281/zenodo.5809128
title: ncbi_peregrine

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.5281/zenodo.5809127
title: ncbi_peregrine

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.5281/zenodo.5809134
title: ncbi_results

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.5281/zenodo.5809133
title: ncbi_results

description: Data for the article 'Transmembrane helices are an over-presented and evolutionarily conserved source of major histocompatibility complex class I and II epitopes' by Richèl J.C. Bilderbeek, Maksim V. Baranov, Geert van den Bogaart and Frans Bianchi. Link to article: [https://github.com/richelbilderbeek/bbbq_article](https://github.com/richelbilderbeek/bbbq_article)
description: Frans Bianchi is funded by a Veni grant from the Netherlands Organization for Scientific Research (016.Veni.192.026) and an Off-Road Grant from the Dutch Medical Science Foundation (ZonMW 04510011910005). Geert van den Bogaart is funded by a Young Investigator Grant from the Human Frontier Science Program (HFSP; RGY0080/2018), and a Vidi grant from the Netherlands Organization for Scientific Research (NWO-ALW VIDI 864.14.001). Geert van den Bogaart has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 862137.
DOI: 10.23728/b2share.6d7ee3cd8b4443398761c31ebd928f3a
title: D3.2 - Final report on the HPC-Europa3 collaborations

description: This document summarises the collaboration established between the HPC-Europa3 project and other initiatives in the HPC arena, together with the carried-out joint activities.
DOI: 10.5517/ccdc.csd.cc23z3mv
title: CCDC 1965357: Experimental Crystal Structure Determination

description: Related Article: Beeraiah Baire, Jampani Santhi|2021|Org.Biomol.Chem.|20|247|doi:10.1039/D1OB02229F
DOI: 10.5517/ccdc.csd.cc2922bt
title: CCDC 2117155: Experimental Crystal Structure Determination

description: Related Article: A. Hernandez, I. Chakraborty, G. Ortega, C.J. Dares|2022|Acta Crystallogr.,Sect.E:Cryst.Commun.|78|40|doi:10.1107/S2056989021011063
DOI: 10.5517/ccdc.csd.cc29ddqv
title: CCDC 2127087: Experimental Crystal Structure Determination

description: Related Article: M.E. Minyaev, K.A. Lyssenko, D.M. Roitershtein, I.E. Nifant'ev|2022|Acta Crystallogr.,Sect.E:Cryst.Commun.|78|44|doi:10.1107/S2056989021013025
DOI: 10.6084/m9.figshare.17025506
title: A draft genome assembly of the Atlantic chub mackerel (Scomber colias) using Illumina and Pacbio Hifi reads

description: Supporting data for "A draft genome assembly of the Atlantic chub mackerel (Scomber colias) using Illumina and Pacbio Hifi reads"
DOI: 10.6084/m9.figshare.17025506.v3
title: A draft genome assembly of the Atlantic chub mackerel (Scomber colias) using Illumina and Pacbio Hifi reads

description: Supporting data for "A draft genome assembly of the Atlantic chub mackerel (Scomber colias) using Illumina and Pacbio Hifi reads"
DOI: 10.6084/m9.figshare.17702510
title: Morphology Data.xlsx

description: Morphology data showing the area, perimeter, circularity, aspect ratio and the shape modes of human oesophageal squamous cell carcinoma (WHCO1) cells of South African origin treated with paclitaxel, ethanol, and the untreated cells in 2D and 3D for up to 48 hours.<br>The purpose of the data is to determine the effect of paclitaxel treatment of the morphology of human oesophageal squamous cell carcinoma of South African origin.<br>
DOI: 10.6084/m9.figshare.17702510.v1
title: Morphology Data.xlsx

description: Morphology data showing the area, perimeter, circularity, aspect ratio and the shape modes of human oesophageal squamous cell carcinoma (WHCO1) cells of South African origin treated with paclitaxel, ethanol, and the untreated cells in 2D and 3D for up to 48 hours.<br>The purpose of the data is to determine the effect of paclitaxel treatment of the morphology of human oesophageal squamous cell carcinoma of South African origin.<br>