cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10955672
title: Epidemiologic data relating to age and gender specific HIV viral suppression in Rakai, Uganda, 2013-2019

description: This repository contains the data for the analyses presented in the paper "Age and gender profiles of HIV infection burden and viraemia: novel metrics for HIV epidemic control in African populations with high antiretroviral therapy coverage", soon available as a preprint. 

We thank all contributors, program staff, and participants to the Rakai Community Cohort Study.

We also extend our gratitude to the Imperial College Research Computing Service for providing the computational resources to perform this study. Additionally, we thank the Office of Cyberinfrastructure and Computational Biology at the National Institute for Allergy and Infectious Diseases for data management support; and Zulip for sponsoring team communications through the Zulip Cloud Standard chat app. 

All analysis code is available from https://github.com/MLGlobalHealth/longi_viral_loads.
description: This study was supported by the National Institute of Allergy and Infectious Diseases [U01AI075115 to RHG, R01AI087409 to RHG, U01AI100031 to RHG, ZIAAI001040 to TCQ]; the National Institute of Mental Health [F31MH095649 to Dr Jennifer Wagman, R01MH099733 to Ned Sacktor and MJW, R01MH107275 to LWC]; the Division of Intramural Research of the National Institute for Allergy and Infectious Diseases [TCQ, OL, SJR], NIAID [K01AA024068 to Dr Jennifer Wagman]; the Johns Hopkins University Center for AIDS Research [2P30AI094189 to Dr Richard Chaisson]; the U.S. President’s Emergency Plan for AIDS Relief (PEPFAR) through the Centers for Disease Control and Prevention [NU2GGH000817 to RHSP]; the Engineering and Physical Sciences Research Council through the EPSRC Centre for Doctoral Training in Modern Statistics and Statistical Machine Learning at Imperial and Oxford [EP/S023151/1 to Prof Axel Gandy]. The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript. The findings and conclusions in this report are those of the author(s) and do not necessarily represent the official position of the Centers for Disease Control and Prevention.
DOI: 10.5281/zenodo.12663850
title: Epidemiologic data relating to age and gender specific HIV viral suppression in Rakai, Uganda, 2013-2019

description: This repository contains the data for the analyses presented in the paper "Age and gender profiles of HIV infection burden and viraemia: novel metrics for HIV epidemic control in African populations with high antiretroviral therapy coverage", soon available as a preprint. 

We thank all contributors, program staff, and participants to the Rakai Community Cohort Study.

We also extend our gratitude to the Imperial College Research Computing Service for providing the computational resources to perform this study. Additionally, we thank the Office of Cyberinfrastructure and Computational Biology at the National Institute for Allergy and Infectious Diseases for data management support; and Zulip for sponsoring team communications through the Zulip Cloud Standard chat app. 

All analysis code is available from https://github.com/MLGlobalHealth/longi_viral_loads.
description: This study was supported by the National Institute of Allergy and Infectious Diseases [U01AI075115 to RHG, R01AI087409 to RHG, U01AI100031 to RHG, ZIAAI001040 to TCQ]; the National Institute of Mental Health [F31MH095649 to Dr Jennifer Wagman, R01MH099733 to Ned Sacktor and MJW, R01MH107275 to LWC]; the Division of Intramural Research of the National Institute for Allergy and Infectious Diseases [TCQ, OL, SJR], NIAID [K01AA024068 to Dr Jennifer Wagman]; the Johns Hopkins University Center for AIDS Research [2P30AI094189 to Dr Richard Chaisson]; the U.S. President’s Emergency Plan for AIDS Relief (PEPFAR) through the Centers for Disease Control and Prevention [NU2GGH000817 to RHSP]; the Engineering and Physical Sciences Research Council through the EPSRC Centre for Doctoral Training in Modern Statistics and Statistical Machine Learning at Imperial and Oxford [EP/S023151/1 to Prof Axel Gandy]. The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript. The findings and conclusions in this report are those of the author(s) and do not necessarily represent the official position of the Centers for Disease Control and Prevention.
DOI: 10.15468/dl.w6avt3
title: Occurrence Download

description: A dataset containing 8888 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Symphonia globulifera L.fil., Symphonia microphylla Benth. & Hook.fil. ex Vesque, Symphonia utilissima R.E.Schult.)"
 ]
}

 The dataset includes 8888 records from 336 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013084-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12663405
title: NextGenerationEU

description: Thermogravimetric data for rigid PU foams
DOI: 10.5281/zenodo.12663406
title: NextGenerationEU

description: Thermogravimetric data for rigid PU foams
DOI: 10.15151/esrf-es-1758945274
title: The Netherlands BAG

description: The Netherlands BAG includes structural biology and enzymology groups situated at six Dutch universities (Utrecht, Groningen, Wageningen, Leiden, Eindhoven and Maastricht) and at the Netherlands Cancer Institute in Amsterdam, with a total of fourteen PIs. While the structural biology research projects carried out in these groups are highly diverse, they can be largely classified into two major themes: (i) research on proteins and systems with a strong biomedical relevance and (ii) research concerning the design of new biocatalysts for green chemistry and new-to-nature reactions. Projects deal with prokaryotic and eukaryotic proteins, membrane and soluble proteins, cell surface receptors, and protein-protein, protein-ribonucleotide, protein-drug and enzyme-ligand complexes.
DOI: 10.5281/zenodo.12664723
title: 5G-IANA: Nokia Testbed – Drivetest results for UL & DL Throughput and RTT with a OnePlus9 UE
DOI: 10.5281/zenodo.12664724
title: 5G-IANA: Nokia Testbed – Drivetest results for UL & DL Throughput and RTT with a OnePlus9 UE
DOI: 10.15468/dl.vvzfkk
title: Occurrence Download

description: A dataset containing 792 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Continent is Europe",
 "OccurrenceStatus is Present",
 "TaxonKey is Arion rufus (Linnaeus, 1758)"
 ]
}

 The dataset includes 792 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013087-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.25112465.v1
title: Database of conformational collections from the PDB clustered at 80% sequence identity and coverage (CIF format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 80% identity and 80% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

Each CIF file contains multiple models. The beginning of the file includes the length of the alignment and a list of the model IDs present in the CIF file. We use _atom_site.auth_seq_id to describe the position of each residue in the considered model within the Multiple Sequence Alignment (MSA).
DOI: 10.6084/m9.figshare.25112426
title: Database of conformational collections from the PDB clustered at 80% sequence identity and coverage (PDB format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 80% identity and 80% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

The structures are given in the form of PDB files with multiple models. The file header provides the number of models, alignment length, and a list of model IDs. These are non-standard PDB files as the amino acids in the models may vary. The alignment position of each amino acid is marked by the residue sequence number in columns 23 to 26. Gaps in the alignment are indicated by missing residue sequence numbers in the file.
DOI: 10.6084/m9.figshare.25112426.v1
title: Database of conformational collections from the PDB clustered at 80% sequence identity and coverage (PDB format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 80% identity and 80% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

The structures are given in the form of PDB files with multiple models. The file header provides the number of models, alignment length, and a list of model IDs. These are non-standard PDB files as the amino acids in the models may vary. The alignment position of each amino acid is marked by the residue sequence number in columns 23 to 26. Gaps in the alignment are indicated by missing residue sequence numbers in the file.
DOI: 10.6084/m9.figshare.25112471.v1
title: Multiple sequence alignments for the database at 80% sequence identity and coverage

description: This archive contains the sequence output of the database generated by the DANCE application at the level of the entire PDB with 80% identity and 80% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.
This archive provides the multiple sequence alignment files for the ensembles in pdbs_80_80.tgz and cifs_80.80.tgz fles, in FASTA format.
DOI: 10.6084/m9.figshare.25112492.v1
title: Pairwise RMSD matrices for the database at 80% sequence identity and coverage

description: This archive includes pairwise root mean squared deviation (RMSD) matrices, which are outputs from the database created by the DANCE application. These matrices cover the entire PDB at 80% identity and 80% coverage. For ensemble-related files, the naming convention begins with 'ID1_ID2_', where ID1 is the first member in alphabetical order and ID2 serves as the reference for the structural alignment.
DOI: 10.6084/m9.figshare.25112498
title: Protein chain clusters for the database at 80% sequence identity and coverage

description: This files lists the members of each ensemble, formatted as one cluster per line. This file is the result of Mmseqs2 clustering and includes singletons, which are not included in the provided ensembles files. It may also contain extra conformations for each ensemble that can be removed in the models due to redundancy.
DOI: 10.6084/m9.figshare.25112471
title: Multiple sequence alignments for the database at 80% sequence identity and coverage

description: This archive contains the sequence output of the database generated by the DANCE application at the level of the entire PDB with 80% identity and 80% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.
This archive provides the multiple sequence alignment files for the ensembles in pdbs_80_80.tgz and cifs_80.80.tgz fles, in FASTA format.
DOI: 10.6084/m9.figshare.25112498.v1
title: Protein chain clusters for the database at 80% sequence identity and coverage

description: This files lists the members of each ensemble, formatted as one cluster per line. This file is the result of Mmseqs2 clustering and includes singletons, which are not included in the provided ensembles files. It may also contain extra conformations for each ensemble that can be removed in the models due to redundancy.
DOI: 10.6084/m9.figshare.25112504.v1
title: Summary statistics for the database at 80% sequence identity and coverage

description: Describes the database in detail. Refer to this part of the readme for a comprehensive description of the statistical data : https://github.com/PhyloSofS-Team/DANCE/blob/main/doc/README.md#columns-of-the-stat-file
DOI: 10.6084/m9.figshare.25112666
title: Multiple sequence alignments for the database at 30% sequence identity and 50% coverage

description: This archive contains the sequence output of the database generated by the DANCE application at the level of the entire PDB with 30% identity and 50% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.
This archive provides the multiple sequence alignment files for the ensembles in pdbs_30_50.tgz and cifs_30.50.tgz fles, in FASTA format.
DOI: 10.6084/m9.figshare.25112690.v1
title: Pairwise RMSD matrices for the database at 30% sequence identity and 50% coverage

description: This archive includes pairwise root mean squared deviation (RMSD) matrices, which are outputs from the database created by the DANCE application. These matrices cover the entire PDB at 30% identity and 50% coverage. For ensemble-related files, the naming convention begins with 'ID1_ID2_', where ID1 is the first member in alphabetical order and ID2 serves as the reference for the structural alignment.
DOI: 10.6084/m9.figshare.25112465
title: Database of conformational collections from the PDB clustered at 80% sequence identity and coverage (CIF format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 80% identity and 80% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

Each CIF file contains multiple models. The beginning of the file includes the length of the alignment and a list of the model IDs present in the CIF file. We use _atom_site.auth_seq_id to describe the position of each residue in the considered model within the Multiple Sequence Alignment (MSA).
DOI: 10.6084/m9.figshare.25112666.v1
title: Multiple sequence alignments for the database at 30% sequence identity and 50% coverage

description: This archive contains the sequence output of the database generated by the DANCE application at the level of the entire PDB with 30% identity and 50% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.
This archive provides the multiple sequence alignment files for the ensembles in pdbs_30_50.tgz and cifs_30.50.tgz fles, in FASTA format.
DOI: 10.6084/m9.figshare.25112492
title: Pairwise RMSD matrices for the database at 80% sequence identity and coverage

description: This archive includes pairwise root mean squared deviation (RMSD) matrices, which are outputs from the database created by the DANCE application. These matrices cover the entire PDB at 80% identity and 80% coverage. For ensemble-related files, the naming convention begins with 'ID1_ID2_', where ID1 is the first member in alphabetical order and ID2 serves as the reference for the structural alignment.
DOI: 10.6084/m9.figshare.25112690
title: Pairwise RMSD matrices for the database at 30% sequence identity and 50% coverage

description: This archive includes pairwise root mean squared deviation (RMSD) matrices, which are outputs from the database created by the DANCE application. These matrices cover the entire PDB at 30% identity and 50% coverage. For ensemble-related files, the naming convention begins with 'ID1_ID2_', where ID1 is the first member in alphabetical order and ID2 serves as the reference for the structural alignment.
DOI: 10.6084/m9.figshare.25112744.v1
title: Database of conformational collections from the PDB clustered at 30% sequence identity and 50% coverage (CIF format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 30% identity and 50% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

Each CIF file contains multiple models. The beginning of the file includes the length of the alignment and a list of the model IDs present in the CIF file. We use _atom_site.auth_seq_id to describe the position of each residue in the considered model within the Multiple Sequence Alignment (MSA).
DOI: 10.6084/m9.figshare.25112504
title: Summary statistics for the database at 80% sequence identity and coverage

description: Describes the database in detail. Refer to this part of the readme for a comprehensive description of the statistical data : https://github.com/PhyloSofS-Team/DANCE/blob/main/doc/README.md#columns-of-the-stat-file
DOI: 10.6084/m9.figshare.25112744
title: Database of conformational collections from the PDB clustered at 30% sequence identity and 50% coverage (CIF format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 30% identity and 50% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

Each CIF file contains multiple models. The beginning of the file includes the length of the alignment and a list of the model IDs present in the CIF file. We use _atom_site.auth_seq_id to describe the position of each residue in the considered model within the Multiple Sequence Alignment (MSA).
DOI: 10.6084/m9.figshare.25112777.v1
title: Protein chain clusters for the database at 30% sequence identity and 50% coverage

description: This files lists the members of each ensemble, formatted as one cluster per line. This file is the result of Mmseqs2 clustering and includes singletons, which are not included in the provided ensembles files. It may also contain extra conformations for each ensemble that can be removed in the models due to redundancy.
DOI: 10.6084/m9.figshare.25112765
title: Database of conformational collections from the PDB clustered at 30% sequence identity and 50% coverage (PDB format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 30% identity and 50% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

The structures are given in the form of PDB files with multiple models. The file header provides the number of models, alignment length, and a list of model IDs. These are non-standard PDB files as the amino acids in the models may vary. The alignment position of each amino acid is marked by the residue sequence number in columns 23 to 26. Gaps in the alignment are indicated by missing residue sequence numbers in the file.
DOI: 10.6084/m9.figshare.25112765.v1
title: Database of conformational collections from the PDB clustered at 30% sequence identity and 50% coverage (PDB format)

description: This archive contains the structural output of the database generated by the DANCE application at the level of the entire PDB with 30% identity and 50% coverage.
Files related to an ensemble are prefixed with ID1_ID2_, where ID1 is the first member in alphabetical order, and ID2 is the reference for the structural alignment.

The structures are given in the form of PDB files with multiple models. The file header provides the number of models, alignment length, and a list of model IDs. These are non-standard PDB files as the amino acids in the models may vary. The alignment position of each amino acid is marked by the residue sequence number in columns 23 to 26. Gaps in the alignment are indicated by missing residue sequence numbers in the file.
DOI: 10.6084/m9.figshare.25112774
title: Summary statistics for the database at 30% sequence identity and 50% coverage

description: Describes the database in detail. Refer to this part of the readme for a comprehensive description of the statistical data : https://github.com/PhyloSofS-Team/DANCE/blob/main/doc/README.md#columns-of-the-stat-file
DOI: 10.6084/m9.figshare.25112774.v1
title: Summary statistics for the database at 30% sequence identity and 50% coverage

description: Describes the database in detail. Refer to this part of the readme for a comprehensive description of the statistical data : https://github.com/PhyloSofS-Team/DANCE/blob/main/doc/README.md#columns-of-the-stat-file
DOI: 10.6084/m9.figshare.25112777
title: Protein chain clusters for the database at 30% sequence identity and 50% coverage

description: This files lists the members of each ensemble, formatted as one cluster per line. This file is the result of Mmseqs2 clustering and includes singletons, which are not included in the provided ensembles files. It may also contain extra conformations for each ensemble that can be removed in the models due to redundancy.
DOI: 10.6084/m9.figshare.25112816
title: ABC transporter structural similarity-based conformational collection

description: This repository contains multiple sequence alignment (MSA) and the structures of the ABC transporter superfamily.
DOI: 10.6084/m9.figshare.25112816.v1
title: ABC transporter structural similarity-based conformational collection

description: This repository contains multiple sequence alignment (MSA) and the structures of the ABC transporter superfamily.
DOI: 10.15468/dl.hn9ydf
title: Occurrence Download

description: A dataset containing 71264 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rosa multiflora Thunb."
 ]
}

 The dataset includes 71264 records from 505 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013086-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34816/ifao.archives.114699
title: MONASTÈRES COPTES_nb_1967_00559

description: Référence : nb_1967_00559<br />Site : Esna<br />Secteur : Deir el-Fakhoury<br />Type : photographie<br />
DOI: 10.15468/dl.t7et9n
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gnathacmaeops pratensis (Laicharting, 1784)",
 "Country is Norway",
 "HasCoordinate is true",
 "Year is greater than or equal to 2000",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 10 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002965-230918134249559/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34816/ifao.archives.114698
title: MONASTÈRES COPTES_nb_1967_00558g

description: Référence : nb_1967_00558g<br />Site : Esna<br />Secteur : Cour est; Deir el-Fakhoury<br />Type : photographie<br />
DOI: 10.15468/dl.rhlbhp
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Corydalis flabellata Edgew.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 44 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0042832-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34816/ifao.archives.114697
title: MONASTÈRES COPTES_nb_1967_00558

description: Référence : nb_1967_00558<br />Site : Esna<br />Secteur : Deir el-Fakhoury<br />Type : photographie<br />