cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.18686604
title: Linked collectors and determiners for: Herbarium WRSL, Flora of the Silesia.

description: Natural history specimen data linked to collectors and determiners held within, "Herbarium WRSL, Flora of the Silesia". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/139c8540-af9e-11db-ad75-b8a03c50a862 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/139c8540-af9e-11db-ad75-b8a03c50a862. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10582918
title: Linked collectors and determiners for: Herbarium WRSL, Flora of the Silesia.

description: Natural history specimen data linked to collectors and determiners held within, "Herbarium WRSL, Flora of the Silesia". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/139c8540-af9e-11db-ad75-b8a03c50a862 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/139c8540-af9e-11db-ad75-b8a03c50a862. Formatted as a Frictionless Data package.
DOI: 10.34740/kaggle/dsv/14882840
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5281/zenodo.10582920
title: Linked collectors and determiners for: Colección Hidrobiológica del Chocó.

description: Natural history specimen data linked to collectors and determiners held within, "Colección Hidrobiológica del Chocó". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/13b4fdb0-92a0-4497-bc0a-16d2fdf806fd using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/13b4fdb0-92a0-4497-bc0a-16d2fdf806fd. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686605
title: Linked collectors and determiners for: Colección Hidrobiológica del Chocó.

description: Natural history specimen data linked to collectors and determiners held within, "Colección Hidrobiológica del Chocó". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/13b4fdb0-92a0-4497-bc0a-16d2fdf806fd using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/13b4fdb0-92a0-4497-bc0a-16d2fdf806fd. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18685350
title: Datasets from Multi-omic characterization of the ILC Cell Line Encyclopedia (ICLE)

description: This repository contains the processed multi-omic datasets and supplementary material for the ILC Cell Line Encyclopedia (ICLE).

Dataset Overview The ICLE provides a comprehensive molecular characterization of Invasive Lobular Carcinoma (ILC) and ILC-like breast cancer cell lines. This deposition includes processed data files supporting the manuscript: "Multi-omic characterization of the ILC cell line encyclopedia (ICLE) defines new models for biomarkers discovery and therapeutic exploration."

1. ICLE Datasets (Internal) This section contains processed data generated specifically for this study, organized by platform:





Optical Genome Mapping (Bionano): Contains structural variation (SV) calls, gene fusion candidates, and ShatterSeek output for chromothripsis analysis.




SNP Arrays (CytoSNP): Includes raw IDAT files, processed genotyping data, and copy number segmentation files. Analyses include GISTIC2.0 output, chromosomal instability (CIN) metrics, and CNTools logRR matrices.




DNA Methylation (DNAm): Processed beta-value matrices derived from Illumina arrays (processed via SeSAMe), including differential methylation results (Limma) comparing ILC vs. NST subtypes.




Transcriptomics (RNA-seq): Gene expression data including raw counts, normalized log2CPM values, and PAM50 molecular subtyping scores. Differential expression analysis (DESeq2) results are provided for various comparisons.




Proteomics (RPPA): Normalized protein expression matrices from Reverse Phase Protein Arrays (RPPA), including batch-corrected data (COMBAT) and antibody mapping files.




Whole Exome Sequencing (WES): Variant calling files (VCF), filtered Mutation Annotation Files (MAF), Tumor Mutational Burden (TMB) calculations, and specific read pileups for CDH1 analysis.




Note: Raw RNAseq and WES sequencing files are available at BioProject PRJNA1406296.



2. External Datasets (Benchmarking & Integration) We integrated and analyzed public datasets from the following sources. Processed extracts relevant to this study are included in the External/ directory:





BRCA Cell Line References: Broad Institute CCLE, Sanger Institute (COSMIC/GDSC), and Marcotte et al. datasets.




BRCA Patient Cohorts: TCGA, MSK-IMPACT, and FMI (Foundation Medicine) clinical genomic profiles.



Analysis Code: All scripts for figure generation and processing are available on GitHub. To reproduce the analyses of this study, clone the GitHub repository as well as download the content from this zenodo repository and place in 1-Dataset (folder in GitHub repository).

cBioPortal Instance: cBioPortal instances were setup for ICLE and Integrated BRCA cell line datasets for visualization and analysis.

Authors Osama Shiraz Shah, Fangyuan Chen, Abdalla Wedn, Anokhi Kashiparekh, Beth A. Knapick, Jian Chen, Laura Savariau, Ben Clifford, Matthias Christgen, Ethan Sokol, Jagmohan Hooda, Jennifer M. Atkinson, Steffi Oesterreich*, Adrian V. Lee* *Equal contribution, corresponding authors
DOI: 10.5281/zenodo.10582922
title: Linked collectors and determiners for: AntWeb.

description: Natural history specimen data linked to collectors and determiners held within, "AntWeb". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/13b70480-bd69-11dd-b15f-b8a03c50a862 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/13b70480-bd69-11dd-b15f-b8a03c50a862. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686606
title: Linked collectors and determiners for: AntWeb.

description: Natural history specimen data linked to collectors and determiners held within, "AntWeb". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/13b70480-bd69-11dd-b15f-b8a03c50a862 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/13b70480-bd69-11dd-b15f-b8a03c50a862. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10582924
title: Linked collectors and determiners for: Actualización de la Colección de Artrópodos con importancia médica (CAIM), Laboratorio de Entomología, InDRE.

description: Natural history specimen data linked to collectors and determiners held within, "Actualización de la Colección de Artrópodos con importancia médica (CAIM), Laboratorio de Entomología, InDRE". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/13b81e69-7c05-42ad-89e7-04bfdb21e707 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/13b81e69-7c05-42ad-89e7-04bfdb21e707. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686607
title: Linked collectors and determiners for: Actualización de la Colección de Artrópodos con importancia médica (CAIM), Laboratorio de Entomología, InDRE.

description: Natural history specimen data linked to collectors and determiners held within, "Actualización de la Colección de Artrópodos con importancia médica (CAIM), Laboratorio de Entomología, InDRE". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/13b81e69-7c05-42ad-89e7-04bfdb21e707 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/13b81e69-7c05-42ad-89e7-04bfdb21e707. Formatted as a Frictionless Data package.
DOI: 10.15468/dl.k5xk4s
title: Occurrence Download

description: A dataset containing 49888 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Coquillettidia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 49888 records from 137 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028174-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10582934
title: Linked collectors and determiners for: Diptera Collection - Instituto Nacional de Pesquisas da Amazônia (INPA).

description: Natural history specimen data linked to collectors and determiners held within, "Diptera Collection - Instituto Nacional de Pesquisas da Amazônia (INPA)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/1412d4de-9982-4f96-8393-3dc9fe1df74f using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/1412d4de-9982-4f96-8393-3dc9fe1df74f. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686608
title: Linked collectors and determiners for: Diptera Collection - Instituto Nacional de Pesquisas da Amazônia (INPA).

description: Natural history specimen data linked to collectors and determiners held within, "Diptera Collection - Instituto Nacional de Pesquisas da Amazônia (INPA)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/1412d4de-9982-4f96-8393-3dc9fe1df74f using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/1412d4de-9982-4f96-8393-3dc9fe1df74f. Formatted as a Frictionless Data package.
DOI: 10.15468/dl.wzh2b7
title: Occurrence Download

description: A dataset listing the 187 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((177.0197 -37.96327,176.99323 -37.96492,176.97503 -37.97118,176.96308 -37.98349,176.95609 -37.99526,176.94745 -38.01585,176.95021 -38.03755,176.95352 -38.04913,176.96712 -38.05869,176.9776 -38.06237,176.99783 -38.06807,177.01198 -38.06954,177.03717 -38.07138,177.05905 -38.0677,177.0721 -38.0609,177.08166 -38.05373,177.08589 -38.04803,177.0927 -38.04031,177.09729 -38.0335,177.10226 -38.02449,177.10887 -38.01365,177.10998 -38.00997,177.10832 -38.00261,177.09968 -37.9789,177.08424 -37.97614,177.06677 -37.97228,177.05353 -37.96915,177.02724 -37.95959,177.0197 -37.96327))",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Athoracophoridae, Rhytididae, Insecta, Arachnida, Onychophora)"
 ]
}

 The dataset's 187 records were derived from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028152-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10582938
title: Linked collectors and determiners for: Sistematización de la Colección Entomológica Forestal del CENID-COMEF.

description: Natural history specimen data linked to collectors and determiners held within, "Sistematización de la Colección Entomológica Forestal del CENID-COMEF". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/143bc778-c784-45ea-a6fe-d6bbf499a08e using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/143bc778-c784-45ea-a6fe-d6bbf499a08e. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686609
title: Linked collectors and determiners for: Sistematización de la Colección Entomológica Forestal del CENID-COMEF.

description: Natural history specimen data linked to collectors and determiners held within, "Sistematización de la Colección Entomológica Forestal del CENID-COMEF". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/143bc778-c784-45ea-a6fe-d6bbf499a08e using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/143bc778-c784-45ea-a6fe-d6bbf499a08e. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686610
title: Linked collectors and determiners for: Buffalo Society of Natural Sciences Ornithology.

description: Natural history specimen data linked to collectors and determiners held within, "Buffalo Society of Natural Sciences Ornithology". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/147e1b93-9e2d-43a2-a34d-18738edeaa24 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/147e1b93-9e2d-43a2-a34d-18738edeaa24. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10582940
title: Linked collectors and determiners for: Buffalo Society of Natural Sciences Ornithology.

description: Natural history specimen data linked to collectors and determiners held within, "Buffalo Society of Natural Sciences Ornithology". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/147e1b93-9e2d-43a2-a34d-18738edeaa24 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/147e1b93-9e2d-43a2-a34d-18738edeaa24. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10582942
title: Linked collectors and determiners for: A new species and records of Diolenius Thorell, 1870 (Araneae: Salticidae) from New Guinea.

description: Natural history specimen data linked to collectors and determiners held within, "A new species and records of Diolenius Thorell, 1870 (Araneae: Salticidae) from New Guinea". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/1490b514-9f31-4835-bfe5-45054cc21c9a using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/1490b514-9f31-4835-bfe5-45054cc21c9a. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686611
title: Linked collectors and determiners for: A new species and records of Diolenius Thorell, 1870 (Araneae: Salticidae) from New Guinea.

description: Natural history specimen data linked to collectors and determiners held within, "A new species and records of Diolenius Thorell, 1870 (Araneae: Salticidae) from New Guinea". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/1490b514-9f31-4835-bfe5-45054cc21c9a using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/1490b514-9f31-4835-bfe5-45054cc21c9a. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686613
title: Linked collectors and determiners for: Consolidación de la colección de referencia de peces de la Estación Mazatlán, (ICMyL-UNAM) e implementación de los mecanismos para su manejo y consulta.

description: Natural history specimen data linked to collectors and determiners held within, "Consolidación de la colección de referencia de peces de la Estación Mazatlán, (ICMyL-UNAM) e implementación de los mecanismos para su manejo y consulta". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/14efaf3e-d053-4f50-8e44-d0d2c5ab48b7 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/14efaf3e-d053-4f50-8e44-d0d2c5ab48b7. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686615
title: Linked collectors and determiners for: Consolidación de la colección de referencia de peces de la Estación Mazatlán, (ICMyL-UNAM) e implementación de los mecanismos para su manejo y consulta.

description: Natural history specimen data linked to collectors and determiners held within, "Consolidación de la colección de referencia de peces de la Estación Mazatlán, (ICMyL-UNAM) e implementación de los mecanismos para su manejo y consulta". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/14efaf3e-d053-4f50-8e44-d0d2c5ab48b7 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/14efaf3e-d053-4f50-8e44-d0d2c5ab48b7. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686612
title: Linked collectors and determiners for: Arizona State University Charles W. O'Brien Collection.

description: Natural history specimen data linked to collectors and determiners held within, "Arizona State University Charles W. O'Brien Collection". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/14aff274-bf79-4a74-86ce-fb8b115adbf3 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/14aff274-bf79-4a74-86ce-fb8b115adbf3. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10582946
title: Linked collectors and determiners for: Arizona State University Charles W. O'Brien Collection.

description: Natural history specimen data linked to collectors and determiners held within, "Arizona State University Charles W. O'Brien Collection". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/14aff274-bf79-4a74-86ce-fb8b115adbf3 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/14aff274-bf79-4a74-86ce-fb8b115adbf3. Formatted as a Frictionless Data package.
DOI: 10.15468/dl.gr3a42
title: Occurrence Download

description: A dataset containing 138685 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ara severus"
 ]
}

 The dataset includes 138685 records from 239 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028144-260208012135463/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10582952
title: Linked collectors and determiners for: Collection entomologique Pierre Lachiver.

description: Natural history specimen data linked to collectors and determiners held within, "Collection entomologique Pierre Lachiver". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/153e9f31-04c3-40d3-a99e-6150e38111a8 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/153e9f31-04c3-40d3-a99e-6150e38111a8. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686616
title: Linked collectors and determiners for: CAS Entomology (ENT).

description: Natural history specimen data linked to collectors and determiners held within, "CAS Entomology (ENT)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/14f3151a-e95d-493c-a40d-d9938ef62954 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/14f3151a-e95d-493c-a40d-d9938ef62954. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686617
title: Linked collectors and determiners for: Collection entomologique Pierre Lachiver.

description: Natural history specimen data linked to collectors and determiners held within, "Collection entomologique Pierre Lachiver". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/153e9f31-04c3-40d3-a99e-6150e38111a8 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/153e9f31-04c3-40d3-a99e-6150e38111a8. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10582948
title: Linked collectors and determiners for: CAS Entomology (ENT).

description: Natural history specimen data linked to collectors and determiners held within, "CAS Entomology (ENT)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/14f3151a-e95d-493c-a40d-d9938ef62954 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/14f3151a-e95d-493c-a40d-d9938ef62954. Formatted as a Frictionless Data package.
DOI: 10.57745/uz2nj7
title: Duplication des données : Carte d’occupation des sols du CES OSO – THEIA (2016-2023, France métropolitaine)

description: Description officielle des données Portail officiel de téléchargement Raison du dépôt En raison de la trouvabilité et de l’accessibilité technique limitées des données, ce dépôt regroupe l’ensemble des données raster de l’occupation du sol (OSO) téléchargeables sur la plateforme GEODES du CNES. Point sur les licences Les données originales sont diffusées sous la licence ODbL 1.0 selon le gouvernement français. Cependant, d'après cette même source, cette licence est compatible avec la licence « Etalab ». Ce point est d'ailleurs confirmé par la mention de l'utilisation de la licence Etalab sur le site de Theia. Ainsi, ces données sont redistribuées sous la Licence Ouverte ETALAB V2.0. API L'accès à une API de découpe selon un polygone des cartes d'occupation du sol est disponible sur demande. Proposition de citation OSO – THEIA / CES OSO, Cartes annuelles d’occupation du sol (OSO, France métropolitaine), CNES/GEODES, niveau L3B-OSO. Licence : ODbL 1.0 / Licence Ouverte v2.0 (Etalab). Accès officiel : https://geodes-portal.cnes.fr. Redistribution (non officielle) : https://doi.org/10.57745/UZ2NJ7
DOI: 10.5281/zenodo.10582956
title: Linked collectors and determiners for: Hydraenidae of Madagascar (Insecta: Coleoptera).

description: Natural history specimen data linked to collectors and determiners held within, "Hydraenidae of Madagascar (Insecta: Coleoptera)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/15799d2a-1968-4874-8100-452597d4e26b using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/15799d2a-1968-4874-8100-452597d4e26b. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686620
title: Linked collectors and determiners for: Hydraenidae of Madagascar (Insecta: Coleoptera).

description: Natural history specimen data linked to collectors and determiners held within, "Hydraenidae of Madagascar (Insecta: Coleoptera)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/15799d2a-1968-4874-8100-452597d4e26b using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/15799d2a-1968-4874-8100-452597d4e26b. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686619
title: Linked collectors and determiners for: Colección Entomológica de la Orinoquia (CEO).

description: Natural history specimen data linked to collectors and determiners held within, "Colección Entomológica de la Orinoquia (CEO)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/1560c0d7-8a87-4724-a3f9-6322e08ee8e2 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/1560c0d7-8a87-4724-a3f9-6322e08ee8e2. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10582954
title: Linked collectors and determiners for: Colección Entomológica de la Orinoquia (CEO).

description: Natural history specimen data linked to collectors and determiners held within, "Colección Entomológica de la Orinoquia (CEO)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/1560c0d7-8a87-4724-a3f9-6322e08ee8e2 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/1560c0d7-8a87-4724-a3f9-6322e08ee8e2. Formatted as a Frictionless Data package.