cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16456746
title: Additional file 1 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 1. List of the identified differential co-expressed modules in ACs, ATLL, and HAM/TSP.
DOI: 10.6084/m9.figshare.16456746.v1
title: Additional file 1 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 1. List of the identified differential co-expressed modules in ACs, ATLL, and HAM/TSP.
DOI: 10.6084/m9.figshare.16456752
title: Additional file 2 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 2. The preservation of modules in the external datasets (ACs, ATLL, and HAM/TSP).
DOI: 10.6084/m9.figshare.16456752.v1
title: Additional file 2 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 2. The preservation of modules in the external datasets (ACs, ATLL, and HAM/TSP).
DOI: 10.6084/m9.figshare.16456755
title: Additional file 3 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 3. The enriched pathways by the connected proteins in each identified DiffCoEx_NA, DiffCoEx_AA, and DiffCoEx_AH.
DOI: 10.6084/m9.figshare.16456755.v1
title: Additional file 3 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 3. The enriched pathways by the connected proteins in each identified DiffCoEx_NA, DiffCoEx_AA, and DiffCoEx_AH.
DOI: 10.6084/m9.figshare.16456761
title: Additional file 4 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 4. The list of specific pathways-genes in ACs, ATLL, and HAM/TSP.
DOI: 10.6084/m9.figshare.16456761.v1
title: Additional file 4 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 4. The list of specific pathways-genes in ACs, ATLL, and HAM/TSP.
DOI: 10.6084/m9.figshare.16456767
title: Additional file 5 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 5. The list of DEGs, common between DEGs and DiffCoEx_AA, and specific genes for ATLL.
DOI: 10.6084/m9.figshare.16456767.v1
title: Additional file 5 of Decoding pathogenesis factors involved in the progression of ATLL or HAM/TSP after infection by HTLV-1 through a systems virology study

description: Additional file 5. The list of DEGs, common between DEGs and DiffCoEx_AA, and specific genes for ATLL.
DOI: 10.15468/pnehzv
title: A new genus from Madagascar with strongly enlarged labium (Ephemeroptera, Baetidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Kaltenbach, Thomas, Gattolliat, Jean-Luc (2021): A new genus from Madagascar with strongly enlarged labium (Ephemeroptera, Baetidae). African Invertebrates 62 (2): 465-484, DOI: http://dx.doi.org/10.3897/afrinvertebr.62.73911, URL: http://dx.doi.org/10.3897/afrinvertebr.62.73911
DOI: 10.15468/jxz6r6
title: Phylogenetic analyses and morphological characters reveal two new species of Ganoderma from Yunnan province, China

description: This dataset contains the digitized treatments in Plazi based on the original journal article He, Jun, Luo, Zong-Long, Tang, Song-Ming, Li, Yong-Jun, Li, Shu-Hong, Su, Hong-Yan (2021): Phylogenetic analyses and morphological characters reveal two new species of Ganoderma from Yunnan province, China. MycoKeys 84: 141-162, DOI: http://dx.doi.org/10.3897/mycokeys.84.69449, URL: http://dx.doi.org/10.3897/mycokeys.84.69449
DOI: 10.15468/vk7qtq
title: Two new lecanoroid lichen species from the forested wetlands of South Korea, with a key for Korean Protoparmeliopsis species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Lee, Beeyoung Gun, Hur, Jae-Seoun (2021): Two new lecanoroid lichen species from the forested wetlands of South Korea, with a key for Korean Protoparmeliopsis species. MycoKeys 84: 163-183, DOI: http://dx.doi.org/10.3897/mycokeys.84.70798, URL: http://dx.doi.org/10.3897/mycokeys.84.70798
DOI: 10.5281/zenodo.5687447
title: Multi-ideology ISIS/Jihadist White Supremacist (MIWS) Dataset for Multi-class Extremism Text Classification

description: **************Information on how to use our Multi-ideology ISIS/Jihadist White Supremacist Dataset(MIWS)for Multi-class Extremism Text Classification ************ Folder name: Seed_MIWS<br> Sub Folder 1 : Seed_Dataset<br> Inside this folder there are two .csv files.<br> 1) ISIS/Jihadist_Seed_Dataset<br> 2) White_Supremacist_Seed_Dataset These files have common features as:<br> ***************************** Common Features in Seed ******************************************************<br> *********Source :- Contains Author, Article Name or Hyperlink to Article************************************<br> *********Type_of_Source :- Whether Source is Research Article or Report or Website**************************<br> *********Text :- Contains Extremist Text provided in Source*************************************************<br> *********Ideology :- Ideology of Text mentioned in Source i.e. ISIS/Jihadist or White Supremacist***********<br> *********Label :- Labels for Text provided by Source i.e. Propaganda, Radicalization or Recruitment*********<br> *********Geographical_Location :- Location mentioned in Text. Geographical Location is manually identified**<br> *********Author_Country_Affiliation :- Country of origin of Research Article, Report or Website in Source*** Sub Folder 2 : MIWS<br> Inside this folder ther is one .csv file: It contains features as:<br> *****************************Features in MIWS********************************************************************************<br> **********Tweet_ID :- Unique Identification for a Tweet provided by Twitter**************************************************<br> **********Created_Date :- Date and Time at whic Tweet was created or posted**************************************************<br> **********Geo_Enabled :- Boolean value. True if location is made public by User**********************************************<br> **********Geographical_Location :- Manually extracted list of Locations within the tweet. 'Undefined' if no location present*<br> **********Ideology :- Manually provided during Tweet Collection i.e. ISIS/Jihadist or White Supremacist**********************<br> **********Labels :- Annotated by comparing with Seed, i.e. Propaganda, Radicalization and Recruitment*********************** MIWS file can be used to collect tweets and train model for extremism detection.
DOI: 10.5281/zenodo.5687446
title: Multi-ideology ISIS/Jihadist White Supremacist (MIWS) Dataset for Multi-class Extremism Text Classification

description: **************Information on how to use our Multi-ideology ISIS/Jihadist White Supremacist Dataset(MIWS)for Multi-class Extremism Text Classification ************ Folder name: Seed_MIWS<br> Sub Folder 1 : Seed_Dataset<br> Inside this folder there are two .csv files.<br> 1) ISIS/Jihadist_Seed_Dataset<br> 2) White_Supremacist_Seed_Dataset These files have common features as:<br> ***************************** Common Features in Seed ******************************************************<br> *********Source :- Contains Author, Article Name or Hyperlink to Article************************************<br> *********Type_of_Source :- Whether Source is Research Article or Report or Website**************************<br> *********Text :- Contains Extremist Text provided in Source*************************************************<br> *********Ideology :- Ideology of Text mentioned in Source i.e. ISIS/Jihadist or White Supremacist***********<br> *********Label :- Labels for Text provided by Source i.e. Propaganda, Radicalization or Recruitment*********<br> *********Geographical_Location :- Location mentioned in Text. Geographical Location is manually identified**<br> *********Author_Country_Affiliation :- Country of origin of Research Article, Report or Website in Source*** Sub Folder 2 : MIWS<br> Inside this folder ther is one .csv file: It contains features as:<br> *****************************Features in MIWS********************************************************************************<br> **********Tweet_ID :- Unique Identification for a Tweet provided by Twitter**************************************************<br> **********Created_Date :- Date and Time at whic Tweet was created or posted**************************************************<br> **********Geo_Enabled :- Boolean value. True if location is made public by User**********************************************<br> **********Geographical_Location :- Manually extracted list of Locations within the tweet. 'Undefined' if no location present*<br> **********Ideology :- Manually provided during Tweet Collection i.e. ISIS/Jihadist or White Supremacist**********************<br> **********Labels :- Annotated by comparing with Seed, i.e. Propaganda, Radicalization and Recruitment*********************** MIWS file can be used to collect tweets and train model for extremism detection.
DOI: 10.15468/pjmk3k
title: Rubus kaznowskii (Rosaceae), a new bramble species from south-central Poland

description: This dataset contains the digitized treatments in Plazi based on the original journal article Kosinski, Piotr, Malinski, Tomasz, Nobis, Marcin, Rojek-Jelonek, Magdalena, Tomaszewski, Dominik, Dering, Monika, Zielinski, Jerzy (2021): Rubus kaznowskii (Rosaceae), a new bramble species from south-central Poland. PhytoKeys 185: 27-41, DOI: http://dx.doi.org/10.3897/phytokeys.185.71193, URL: http://dx.doi.org/10.3897/phytokeys.185.71193
DOI: 10.5281/zenodo.5689197
title: Seismic data for 'Hu et al., The productivity of induced seismicity is controlled by injection fluid volume and preexisting faults in the southern Sichuan basin'

description: Datasets presented in Hu's manuscript entitled 'The productivity of induced seismicity is controlled by injection fluid volume and preexisting faults in the southern Sichuan basin'
DOI: 10.5281/zenodo.5689196
title: Seismic data for 'Hu et al., The productivity of induced seismicity is controlled by injection fluid volume and preexisting faults in the southern Sichuan basin'

description: Datasets presented in Hu's manuscript entitled 'The productivity of induced seismicity is controlled by injection fluid volume and preexisting faults in the southern Sichuan basin'
DOI: 10.5281/zenodo.5683002
title: Benchmark Multi-Omics Datasets for Methods Comparison

description: <strong>Pathway Multi-Omics Simulated Data</strong> These are synthetic variations of the TCGA COADREAD data set (original data available at http://linkedomics.org/data_download/TCGA-COADREAD/). This data set is used as a comprehensive benchmark data set to compare multi-omics tools in the manuscript "pathwayMultiomics: An R package for efficient integrative analysis of multi-omics datasets with matched or un-matched samples". There are 100 sets (stored as 100 sub-folders, the first 50 in "pt1" and the second 50 in "pt2") of random modifications to centred and scaled copy number, gene expression, and proteomics data saved as compressed data files for the R programming language. These data sets are stored in subfolders labelled "sim001", "sim002", ..., "sim100". Each folder contains the following contents: 1) "indicatorMatricesXXX_ls.RDS" is a list of simple triplet matrices showing which genes (in which pathways) and which samples received the synthetic treatment (where XXX is the simulation run label: 001, 002, ...), (2) "CNV_partitionA_deltaB.RDS" is the synthetically modified copy number variation data (where A represents the proportion of genes in each gene set to receive the synthetic treatment [partition 1 is 20%, 2 is 40%, 3 is 60% and 4 is 80%] and B is the signal strength in units of standard deviations), (3) "RNAseq_partitionA_deltaB.RDS" is the synthetically modified gene expression data (same parameter legend as CNV), and (4) "Prot_partitionA_deltaB.RDS" is the synthetically modified protein expression data (same parameter legend as CNV). <strong>Supplemental Files</strong> The file "cluster_pathway_collection_20201117.gmt" is the collection of gene sets used for the simulation study in Gene Matrix Transpose format. Scripts to create and analyze these data sets available at: https://github.com/TransBioInfoLab/pathwayMultiomics_manuscript_supplement
description: Research funded by: NIA 1RF1AG061127-01 (Wang, PI)
DOI: 10.5281/zenodo.5683001
title: Benchmark Multi-Omics Datasets for Methods Comparison

description: <strong>Pathway Multi-Omics Simulated Data</strong> These are synthetic variations of the TCGA COADREAD data set (original data available at http://linkedomics.org/data_download/TCGA-COADREAD/). This data set is used as a comprehensive benchmark data set to compare multi-omics tools in the manuscript "pathwayMultiomics: An R package for efficient integrative analysis of multi-omics datasets with matched or un-matched samples". There are 100 sets (stored as 100 sub-folders, the first 50 in "pt1" and the second 50 in "pt2") of random modifications to centred and scaled copy number, gene expression, and proteomics data saved as compressed data files for the R programming language. These data sets are stored in subfolders labelled "sim001", "sim002", ..., "sim100". Each folder contains the following contents: 1) "indicatorMatricesXXX_ls.RDS" is a list of simple triplet matrices showing which genes (in which pathways) and which samples received the synthetic treatment (where XXX is the simulation run label: 001, 002, ...), (2) "CNV_partitionA_deltaB.RDS" is the synthetically modified copy number variation data (where A represents the proportion of genes in each gene set to receive the synthetic treatment [partition 1 is 20%, 2 is 40%, 3 is 60% and 4 is 80%] and B is the signal strength in units of standard deviations), (3) "RNAseq_partitionA_deltaB.RDS" is the synthetically modified gene expression data (same parameter legend as CNV), and (4) "Prot_partitionA_deltaB.RDS" is the synthetically modified protein expression data (same parameter legend as CNV). <strong>Supplemental Files</strong> The file "cluster_pathway_collection_20201117.gmt" is the collection of gene sets used for the simulation study in Gene Matrix Transpose format. Scripts to create and analyze these data sets available at: https://github.com/TransBioInfoLab/pathwayMultiomics_manuscript_supplement
description: Research funded by: NIA 1RF1AG061127-01 (Wang, PI)
DOI: 10.5517/ccdc.csd.cc282n12
title: CCDC 2087913: Experimental Crystal Structure Determination

description: Related Article: Maryam F. Abdollahi, Yuming Zhao|2021|J.Org.Chem.|86|14855|doi:10.1021/acs.joc.1c01633
DOI: 10.5517/ccdc.csd.cc27vr51
title: CCDC 2081283: Experimental Crystal Structure Determination

description: Related Article: Bikash Kumar Sarmah, Monuranjan Konwar, Animesh Das|2021|Org.Lett.|23|8390|doi:10.1021/acs.orglett.1c03115
DOI: 10.5517/ccdc.csd.cc284j43
title: CCDC 2089714: Experimental Crystal Structure Determination

description: Related Article: Eun-Seon Cho, Premanand Krishnan, Hwei-San Loh, Janet M. Daly, Chee-Onn Leong, Chun-Wai Mai, Yun-Yee Low, Kien-Thai Yong, Kuan-Hon Lim|2021|Phytochemistry|193|112988|doi:10.1016/j.phytochem.2021.112988
DOI: 10.5517/ccdc.csd.cc285yt7
title: CCDC 2091099: Experimental Crystal Structure Determination

description: Related Article: Marcus E. Farmer, Lauren E. Ehehalt, Tyler P. Pabst, Matthew T. Tudge, Paul J. Chirik|2021|Organometallics|40|3599|doi:10.1021/acs.organomet.1c00473
DOI: 10.5517/ccdc.csd.cc285yv8
title: CCDC 2091100: Experimental Crystal Structure Determination

description: Related Article: Marcus E. Farmer, Lauren E. Ehehalt, Tyler P. Pabst, Matthew T. Tudge, Paul J. Chirik|2021|Organometallics|40|3599|doi:10.1021/acs.organomet.1c00473
DOI: 10.5517/ccdc.csd.cc285yw9
title: CCDC 2091101: Experimental Crystal Structure Determination

description: Related Article: Marcus E. Farmer, Lauren E. Ehehalt, Tyler P. Pabst, Matthew T. Tudge, Paul J. Chirik|2021|Organometallics|40|3599|doi:10.1021/acs.organomet.1c00473
DOI: 10.5517/ccdc.csd.cc285yxb
title: CCDC 2091102: Experimental Crystal Structure Determination

description: Related Article: Marcus E. Farmer, Lauren E. Ehehalt, Tyler P. Pabst, Matthew T. Tudge, Paul J. Chirik|2021|Organometallics|40|3599|doi:10.1021/acs.organomet.1c00473
DOI: 10.5281/zenodo.5685231
title: Hybrid assembly comparison ONT reads

description: Oxford Nanopore (ONT) reads for 49 natural isolates of E.coli used in the Hybrid genome assembly comparison study, first isolated by Ishii et al. Ishii, S., W.B. Ksoll, R.E. Hicks, and M.J. Sadowsky. 2006. Presence and Growth of Naturalized Escherichia Coli in Temperate Soils from Lake Superior Watersheds. Applied and Environmental Microbiology 72, no. 1: 612–621
DOI: 10.5281/zenodo.5685230
title: Hybrid assembly comparison ONT reads

description: Oxford Nanopore (ONT) reads for 49 natural isolates of E.coli used in the Hybrid genome assembly comparison study, first isolated by Ishii et al. Ishii, S., W.B. Ksoll, R.E. Hicks, and M.J. Sadowsky. 2006. Presence and Growth of Naturalized Escherichia Coli in Temperate Soils from Lake Superior Watersheds. Applied and Environmental Microbiology 72, no. 1: 612–621
DOI: 10.5281/zenodo.5684037
title: Hybrid assembly comparisons Illumina reads

description: Illumina reads for 49 natural isolates of E.coli used in the Hybrid genome assembly comparison study, first isolated by Ishii et al. Ishii, S., W.B. Ksoll, R.E. Hicks, and M.J. Sadowsky. 2006. Presence and Growth of Naturalized Escherichia Coli in Temperate Soils from Lake Superior Watersheds. Applied and Environmental Microbiology 72, no. 1: 612–621
DOI: 10.5281/zenodo.5684036
title: Hybrid assembly comparisons Illumina reads

description: Illumina reads for 49 natural isolates of E.coli used in the Hybrid genome assembly comparison study, first isolated by Ishii et al. Ishii, S., W.B. Ksoll, R.E. Hicks, and M.J. Sadowsky. 2006. Presence and Growth of Naturalized Escherichia Coli in Temperate Soils from Lake Superior Watersheds. Applied and Environmental Microbiology 72, no. 1: 612–621
DOI: 10.15151/esrf-es-536305320
title: Structural Studies of Membrane and Soluble Proteins from the Gothenburg and Lund Structural Biology Groups

description: Our BAG combines the research interests of the Principal Investigators based in Gothenburg (Brändén, Burmann, Hedfalk, Gallego, Höög, Johansson, Katona, Neutze, Westenhoff) and in Lund (Gourdon, , Krintel, Lindkvist, Logan, Törnroth-Horsefield). Most of the PIs are relatively young and represent a strong cluster within Swedish life-science research. We use diverse methods including cryo-crystallography, serial crystallography, X-ray scattering and cryo-electron microscopy. We have scientific interests in a diverse sample of membrane protein and soluble protein targets. This is the first time that we used the BAG structure to request access to the electron microscopy facilities of the ESRF. We also wish to collaborate with scientists at the ESRF to promote and diversify the field of serial millisecond crystallography.
DOI: 10.15151/esrf-es-541418359
title: Belgium BAG
DOI: 10.15151/esrf-es-613490514
title: Structural Biology of Macromolecules and Macromolecular complexes from India

description: Structural biology research groups located in India constitute the INDIA-BAG and will utilize MX, SAXS and CryoEM to study different biological macromolecules. Together, these groups address multiple pathways in animals, plants, bacteria and fungi. These studies will provide fundamental mechanistic insight regarding different processes critical for the survival and propagation of the relevant organism. Many groups in the BAG study proteins from pathogens to identify novel intervention points that can be the targeted with small molecule inhibitors to inhibit the growth of the corresponding infectious agents. There are more than 50 groups that are part of this BAG and the allocated beamtime will be available for over 500 young researchers. A brief description of all the research groups is provided in the global summary and a summary of the research contributions involving data collected at ESRF is provided in the last BAG report.
DOI: 10.15151/esrf-es-514139192
title: Multi-scale Multi-techniques investigations of Li-ion batteries: towards a European Battery Hub

description: In this science-driven Long-Term proposal, we propose a 3-years multi-beamline program tackling grand challenges for actual, emerging and future battery technologies. We will deploy advanced methodologies for accelerating research by setting new cooperation modes for multi-techniques multi-scale studies. Three chemistry-neutral scientific cases have been identified to fulfil this LTP: bulk-to-surface mechanisms, high energy system and smart sensing. Multiple, time-coordinated, interoperable spectroscopic, imaging & scattering techniques will be implemented. This proposal is the Pilot Phase towards a European Battery Hub aiming at accelerating workflows in battery research by optimizing the exceptional diversity of means available at ESRF. We expect to demonstrate the added value of a new “proposal” mechanism, e.g. science-driven beamtime allocation group, serving the fast growing, highly competitive and rapidly evolving European battery community.
DOI: 10.15151/esrf-es-561457423
title: Pressure dependence of crystal structure of La0.5Ba0.5CoO2.75

description: The main goal of this proposal is to obtain reliable experimental data on the crystal structure, isotropic ADP for Co and O, as well as lattice parameters of La0.5Ba0.5CoO2.75 under applied pressure. The combination of X-ray with neutron (D20, ILL) diffraction and XMCD data (ID-12, ESRF, accepted proposal HC-4142) taken at high pressure will give us the opportunity to analyze the crystal with magnetic and electronic structure distortions in order to establish the correlations between crystal and magnetic structure changes and clarify the origin of magneto-structural phase transition in La0.5Ba0.5CoO2.75 at ambient pressure near the AFM-FM, PM-FM, the ST as well as to provide an input for detailed state-of-the-art DFT calculations to verify the mechanism of selective pressure effect on the magnetic ground state and small structural distortions, including the analysis of isotropic ADP for Co and O
DOI: 10.15151/esrf-es-561463213
title: Pores volume evolution and damage nucleation during hot rolling : investigation of opening mechanical fields by in situ X-ray nano-tomograph

description: The aim of this experiment is to use the ID16B beamline to perform in situ X Ray nano-tomography during high temperature tensile test on a commercial 2050 aluminium alloy in order to characterize the damage evolution (pore nucleation and growth). The results extracted from the 3D volumes reconstructed will be used to have a better understanding of the phenomenon and feed current models to improve the hot-rolling process of thick aluminium plates.
DOI: 10.6084/m9.figshare.17004550.v1
title: Supplemental data for Li et al Molecular diagnoses of skeletal dysplasia in China.docx

description: Supplemental data for Li et al Molecular diagnoses of skeletal dysplasia in China: a large single-center study over the past 12 years