cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.18686786
title: Linked collectors and determiners for: Herbario Pontificia Universidad Javeriana.

description: Natural history specimen data linked to collectors and determiners held within, "Herbario Pontificia Universidad Javeriana". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/224bb9c2-4426-4d4d-ac9c-38758b5d938f using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/224bb9c2-4426-4d4d-ac9c-38758b5d938f. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686787
title: Linked collectors and determiners for: MLZ Mammal Collection (Arctos).

description: Natural history specimen data linked to collectors and determiners held within, "MLZ Mammal Collection (Arctos)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/226b536c-25f9-4f6b-b144-edcbdffa3566 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/226b536c-25f9-4f6b-b144-edcbdffa3566. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583302
title: Linked collectors and determiners for: MLZ Mammal Collection (Arctos).

description: Natural history specimen data linked to collectors and determiners held within, "MLZ Mammal Collection (Arctos)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/226b536c-25f9-4f6b-b144-edcbdffa3566 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/226b536c-25f9-4f6b-b144-edcbdffa3566. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686788
title: Linked collectors and determiners for: ICN - Herbário do Instituto de Ciências Naturais.

description: Natural history specimen data linked to collectors and determiners held within, "ICN - Herbário do Instituto de Ciências Naturais". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2273e40d-26c2-4959-aea2-b6abcce16d09 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2273e40d-26c2-4959-aea2-b6abcce16d09. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583304
title: Linked collectors and determiners for: ICN - Herbário do Instituto de Ciências Naturais.

description: Natural history specimen data linked to collectors and determiners held within, "ICN - Herbário do Instituto de Ciências Naturais". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2273e40d-26c2-4959-aea2-b6abcce16d09 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2273e40d-26c2-4959-aea2-b6abcce16d09. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686789
title: Linked collectors and determiners for: MSU Mammalogy, Ornithology and Vertebrate Paleontology Collections.

description: Natural history specimen data linked to collectors and determiners held within, "MSU Mammalogy, Ornithology and Vertebrate Paleontology Collections". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/22a66350-7947-4a49-84a3-39c7c1b0881f using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/22a66350-7947-4a49-84a3-39c7c1b0881f. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583308
title: Linked collectors and determiners for: MSU Mammalogy, Ornithology and Vertebrate Paleontology Collections.

description: Natural history specimen data linked to collectors and determiners held within, "MSU Mammalogy, Ornithology and Vertebrate Paleontology Collections". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/22a66350-7947-4a49-84a3-39c7c1b0881f using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/22a66350-7947-4a49-84a3-39c7c1b0881f. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686792
title: Linked collectors and determiners for: Occurrence of some antimalarial plants from Cameroon.

description: Natural history specimen data linked to collectors and determiners held within, "Occurrence of some antimalarial plants from Cameroon". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/22b805bb-5b5a-4db8-8ddd-4f7bff767993 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/22b805bb-5b5a-4db8-8ddd-4f7bff767993. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583310
title: Linked collectors and determiners for: Occurrence of some antimalarial plants from Cameroon.

description: Natural history specimen data linked to collectors and determiners held within, "Occurrence of some antimalarial plants from Cameroon". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/22b805bb-5b5a-4db8-8ddd-4f7bff767993 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/22b805bb-5b5a-4db8-8ddd-4f7bff767993. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686795
title: Linked collectors and determiners for: UWIZM Sponges.

description: Natural history specimen data linked to collectors and determiners held within, "UWIZM Sponges". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/231acf5a-0727-4315-b97d-957746e5f197 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/231acf5a-0727-4315-b97d-957746e5f197. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583316
title: Linked collectors and determiners for: UWIZM Sponges.

description: Natural history specimen data linked to collectors and determiners held within, "UWIZM Sponges". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/231acf5a-0727-4315-b97d-957746e5f197 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/231acf5a-0727-4315-b97d-957746e5f197. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686797
title: Linked collectors and determiners for: Herbario Universidad de Antioquia (HUA).

description: Natural history specimen data linked to collectors and determiners held within, "Herbario Universidad de Antioquia (HUA)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/23243164-c132-444d-a3a4-34662abb8305 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/23243164-c132-444d-a3a4-34662abb8305. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686796
title: Linked collectors and determiners for: IICT Herbário LISC.

description: Natural history specimen data linked to collectors and determiners held within, "IICT Herbário LISC". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/231c5bcf-1b56-4905-a398-6d0e18f6de1a using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/231c5bcf-1b56-4905-a398-6d0e18f6de1a. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583318
title: Linked collectors and determiners for: IICT Herbário LISC.

description: Natural history specimen data linked to collectors and determiners held within, "IICT Herbário LISC". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/231c5bcf-1b56-4905-a398-6d0e18f6de1a using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/231c5bcf-1b56-4905-a398-6d0e18f6de1a. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583320
title: Linked collectors and determiners for: Herbario Universidad de Antioquia (HUA).

description: Natural history specimen data linked to collectors and determiners held within, "Herbario Universidad de Antioquia (HUA)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/23243164-c132-444d-a3a4-34662abb8305 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/23243164-c132-444d-a3a4-34662abb8305. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686804
title: Linked collectors and determiners for: Les Gymnospermes de  l'Herbier du Centre National de Floristique de Côte d'Ivoire.

description: Natural history specimen data linked to collectors and determiners held within, "Les Gymnospermes de  l'Herbier du Centre National de Floristique de Côte d'Ivoire". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/233e1bdb-3141-4367-b364-1f88db6b65a1 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/233e1bdb-3141-4367-b364-1f88db6b65a1. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583324
title: Linked collectors and determiners for: Les Gymnospermes de  l'Herbier du Centre National de Floristique de Côte d'Ivoire.

description: Natural history specimen data linked to collectors and determiners held within, "Les Gymnospermes de  l'Herbier du Centre National de Floristique de Côte d'Ivoire". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/233e1bdb-3141-4367-b364-1f88db6b65a1 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/233e1bdb-3141-4367-b364-1f88db6b65a1. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686805
title: Linked collectors and determiners for: Foraminiferal assemblages in the Hardangerfjord, western Norway.

description: Natural history specimen data linked to collectors and determiners held within, "Foraminiferal assemblages in the Hardangerfjord, western Norway". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2372eba1-a784-48a3-980e-ae7798f12c7d using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2372eba1-a784-48a3-980e-ae7798f12c7d. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583328
title: Linked collectors and determiners for: Foraminiferal assemblages in the Hardangerfjord, western Norway.

description: Natural history specimen data linked to collectors and determiners held within, "Foraminiferal assemblages in the Hardangerfjord, western Norway". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2372eba1-a784-48a3-980e-ae7798f12c7d using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2372eba1-a784-48a3-980e-ae7798f12c7d. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686807
title: Linked collectors and determiners for: Actualización de la base de datos de la Colección Regional Durango  (Tejido).

description: Natural history specimen data linked to collectors and determiners held within, "Actualización de la base de datos de la Colección Regional Durango  (Tejido)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2388291e-d210-40f5-be53-5b87ac0806c0 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2388291e-d210-40f5-be53-5b87ac0806c0. Formatted as a Frictionless Data package.
DOI: 10.26030/ty34-at33
title: Lunar gravity prevents skeletal muscle atrophy but not myofiber type shift in mice

description: Skeletal muscle is sensitive to gravitational alterations. We recently developed a multiple artificial-gravity research system (MARS), which can generate gravity ranging from microgravity to Earth gravity (1 g) in space. Using the MARS, we studied the effects of three different gravitational levels (microgravity, lunar gravity [1/6 g], and 1 g) on the skeletal muscle mass and myofiber constitution in mice. All mice survived and returned to Earth, and skeletal muscle was collected two days after landing. We observed that microgravity-induced soleus muscle atrophy was prevented by lunar gravity. However, lunar gravity failed to prevent the slow-to-fast myofiber transition in the soleus muscle in space. These results suggest that lunar gravity is enough to maintain proteostasis, but a greater gravitational force is required to prevent the myofiber type transition. Our study proposes that different gravitational thresholds may be required for skeletal muscle adaptation.
DOI: 10.5281/zenodo.10583330
title: Linked collectors and determiners for: Actualización de la base de datos de la Colección Regional Durango  (Tejido).

description: Natural history specimen data linked to collectors and determiners held within, "Actualización de la base de datos de la Colección Regional Durango  (Tejido)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2388291e-d210-40f5-be53-5b87ac0806c0 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2388291e-d210-40f5-be53-5b87ac0806c0. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686808
title: Linked collectors and determiners for: URM - Herbário Pe. Camille Torrand.

description: Natural history specimen data linked to collectors and determiners held within, "URM - Herbário Pe. Camille Torrand". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/23b714b1-fae6-4074-bdd0-5e17ae3b5f11 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/23b714b1-fae6-4074-bdd0-5e17ae3b5f11. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583338
title: Linked collectors and determiners for: URM - Herbário Pe. Camille Torrand.

description: Natural history specimen data linked to collectors and determiners held within, "URM - Herbário Pe. Camille Torrand". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/23b714b1-fae6-4074-bdd0-5e17ae3b5f11 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/23b714b1-fae6-4074-bdd0-5e17ae3b5f11. Formatted as a Frictionless Data package.
DOI: 10.6084/m9.figshare.31366483
title: ET-SDP Dataset

description: This dataset is the base for the article <i>ET-SDP: Enhancing code embeddings </i><i>using effort-related and test coverage metrics for </i><i>improved software defect prediction</i>
DOI: 10.6084/m9.figshare.31366483.v2
title: ET-SDP Dataset

description: This dataset is the base for the article <i>ET-SDP: Enhancing code embeddings </i><i>using effort-related and test coverage metrics for </i><i>improved software defect prediction</i>
DOI: 10.6084/m9.figshare.31366483.v1
title: ET-SDP Dataset

description: This dataset is the base for the article <i>ET-SDP: Enhancing code embeddings </i><i>using effort-related and test coverage metrics for </i><i>improved software defect prediction</i>
DOI: 10.5281/zenodo.10583342
title: Linked collectors and determiners for: Peracarida of Bernardo O'Higgins National Park (S Chile).

description: Natural history specimen data linked to collectors and determiners held within, "Peracarida of Bernardo O'Higgins National Park (S Chile)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2401cd5e-26a8-4a0c-9007-e5e6137a1364 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2401cd5e-26a8-4a0c-9007-e5e6137a1364. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686810
title: Linked collectors and determiners for: Peracarida of Bernardo O'Higgins National Park (S Chile).

description: Natural history specimen data linked to collectors and determiners held within, "Peracarida of Bernardo O'Higgins National Park (S Chile)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2401cd5e-26a8-4a0c-9007-e5e6137a1364 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2401cd5e-26a8-4a0c-9007-e5e6137a1364. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686811
title: Linked collectors and determiners for: MFS-Frutos - Herbário Profª. Drª. Marlene Freitas da Silva - Coleção de Frutos.

description: Natural history specimen data linked to collectors and determiners held within, "MFS-Frutos - Herbário Profª. Drª. Marlene Freitas da Silva - Coleção de Frutos". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/24217e09-f3b0-45a6-a0d5-e10b69a09370 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/24217e09-f3b0-45a6-a0d5-e10b69a09370. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18117319
title: Linked collectors and determiners for: MFS-Frutos - Herbário Profª. Drª. Marlene Freitas da Silva - Coleção de Frutos.

description: Natural history specimen data linked to collectors and determiners held within, "MFS-Frutos - Herbário Profª. Drª. Marlene Freitas da Silva - Coleção de Frutos". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/24217e09-f3b0-45a6-a0d5-e10b69a09370 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/24217e09-f3b0-45a6-a0d5-e10b69a09370. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686812
title: Linked collectors and determiners for: On centipedes (Chilopoda) of Albania, 2.

description: Natural history specimen data linked to collectors and determiners held within, "On centipedes (Chilopoda) of Albania, 2". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2421e270-cdee-494f-8910-d05c178223fb using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2421e270-cdee-494f-8910-d05c178223fb. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583344
title: Linked collectors and determiners for: On centipedes (Chilopoda) of Albania, 2.

description: Natural history specimen data linked to collectors and determiners held within, "On centipedes (Chilopoda) of Albania, 2". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2421e270-cdee-494f-8910-d05c178223fb using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2421e270-cdee-494f-8910-d05c178223fb. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18686813
title: Linked collectors and determiners for: University of Alberta Vascular Plant Herbarium (ALTA-VP).

description: Natural history specimen data linked to collectors and determiners held within, "University of Alberta Vascular Plant Herbarium (ALTA-VP)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2429287b-ef65-4cfd-afcc-11cc3ba95cca using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2429287b-ef65-4cfd-afcc-11cc3ba95cca. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.10583348
title: Linked collectors and determiners for: University of Alberta Vascular Plant Herbarium (ALTA-VP).

description: Natural history specimen data linked to collectors and determiners held within, "University of Alberta Vascular Plant Herbarium (ALTA-VP)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/2429287b-ef65-4cfd-afcc-11cc3ba95cca using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/2429287b-ef65-4cfd-afcc-11cc3ba95cca. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18685349
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 results (DESeq2) comparing ILC vs. NST subtypes.




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 of CDH1 exons to identify exonic deletions.




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:





BRCA Cell Lines Cohorts: CCLE, Sanger, and Marcotte et al. datasets.




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



Analysis Code: All scripts for figure generation and processing are available on GitHub. To reproduce the study analyses, clone GitHub repository and download the ICLE and external datasets from Zenodo. Extract the contents of these .tar.gz files directly into the repository's 1-Dataset folder.

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