cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7780929
title: Clonal heterogeneity of endocrine therapy resistance in breast cancer

description: We barcoded endocrine therapy sensitive cell lines (MCF7 and T47D) and rendered them resistant to commonly applied first line endocrine therapeutics (Tamoxifen and estrogen deprivation). Next, we isolated single cell clones of endocrine therapy resistant populations and subjected clonal cell lines to RNA-Seq and Phosphoproteomics profiling.
description: Supplementary data and material necessary for reproducing the analysis of the relative publication. The raw data of this study have been uploaded in the EGA European Genome-Phenome Archive (EGAS00001007123). Short description of the included data files: Integration site analysis: Analysis of viral integration sites as described in the paper performed by Genewerk GmbH for selected barcoded cell line pools. MCF7_TAMR/LTED_MiSeq_all_barcodes_gr10: Individual MCF7 TAMR and LTED clones were characterized by many barcodes. Therefore, the barcodes of individual clones were deeply sequenced on a MiSeq as described in the paper. All_barcodes_seqq_table: contains information about all barcodes and their reads in all barcoded cell lines as described in the paper.
DOI: 10.5517/ccdc.csd.cc2d003k
title: CCDC 2204537: Experimental Crystal Structure Determination

description: Related Article: Jianglin Qiao, Shiyu Wang, Xiaohua Liu, Xiaoming Feng|2023|Chem.-Eur.J.|29|e202203757|doi:10.1002/chem.202203757
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.22495750
title: fig.docx

description: Dynamics of the Gatev’ structural changes coefficient
DOI: 10.6084/m9.figshare.22495750.v1
title: fig.docx

description: Dynamics of the Gatev’ structural changes coefficient
DOI: 10.5281/zenodo.7794710
title: pyrrhura_berlepschi_zanfona_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7794709
title: pyrrhura_berlepschi_zanfona_1.fasta.gz

description: .
DOI: 10.6084/m9.figshare.22495942
title: AirBnB prod data

description: <em>The New York City Airbnb 2019 Open Data is a dataset containing varius details about a listed unit, when the goal</em><br> <em>is to predict the rental price of a unit.</em><br> <br> <em>This dataset contains the details for units listed in NYC during 2019, was adapted from the following open kaggle</em><br> <em>dataset: https://www.kaggle.com/datasets/dgomonov/new-york-city-airbnb-open-data. This, in turn was downloaded from</em><br> <em>the Airbnb data repository http://insideairbnb.com/get-the-data.</em><br> <br> <em>This dataset is licensed under the CC0 1.0 Universal License (https://creativecommons.org/publicdomain/zero/1.0/).</em><br> <br> <em>The typical ML task in this dataset is to build a model that predicts the average rental price of a unit.</em>
DOI: 10.6084/m9.figshare.22495954
title: Airbnb reference data

description: <em>The New York City Airbnb 2019 Open Data is a dataset containing varius details about a listed unit, when the goal</em><br> <em>is to predict the rental price of a unit.</em><br> <br> <em>This dataset contains the details for units listed in NYC during 2019, was adapted from the following open kaggle</em><br> <em>dataset: https://www.kaggle.com/datasets/dgomonov/new-york-city-airbnb-open-data. This, in turn was downloaded from</em><br> <em>the Airbnb data repository http://insideairbnb.com/get-the-data.</em><br> <br> <em>This dataset is licensed under the CC0 1.0 Universal License (https://creativecommons.org/publicdomain/zero/1.0/).</em><br> <br> <em>The typical ML task in this dataset is to build a model that predicts the average rental price of a unit.</em>
DOI: 10.6084/m9.figshare.22495954.v1
title: Airbnb reference data

description: <em>The New York City Airbnb 2019 Open Data is a dataset containing varius details about a listed unit, when the goal</em><br> <em>is to predict the rental price of a unit.</em><br> <br> <em>This dataset contains the details for units listed in NYC during 2019, was adapted from the following open kaggle</em><br> <em>dataset: https://www.kaggle.com/datasets/dgomonov/new-york-city-airbnb-open-data. This, in turn was downloaded from</em><br> <em>the Airbnb data repository http://insideairbnb.com/get-the-data.</em><br> <br> <em>This dataset is licensed under the CC0 1.0 Universal License (https://creativecommons.org/publicdomain/zero/1.0/).</em><br> <br> <em>The typical ML task in this dataset is to build a model that predicts the average rental price of a unit.</em>
DOI: 10.5281/zenodo.7794712
title: Dataset for Energy Resource Management Considering Participation in the Wholesale Day-Ahead Market

description: This release is associated with a paper entitled "A Novel Bilevel Programming Formulation for Optimizing the Interaction of Distribution System Operators and GENCOs in Day-Ahead Markets". In this document, we provide the mathematical manipulation employed to linearize an MPEC problem that models the market-clearing process considering the participation of generation companies and distribution operators in the day-ahead market. Additionally, we provide a numerical example of the pricing mechanism designed for solving the optimization problem. Finally, we include information regarding the transmission and distribution power systems adopted to present the results shown in the paper. These systems are modified versions of the IEEE 14-bus and the IEEE 34-bus, respectively. Three renewable non-dispatchable generators were added to the original 14-bus system, while 5 dispatchable generators and 3 non-dispatchable generators were added to the distribution system. 13 load shapes were considered as well as 5 scenarios for each uncertain variable (wind velocity, solar irradiance, distribution load oscillation, and transmission load oscillation). The data regarding the costs and physical parameters of each of the power system's elements are provided in this document.
DOI: 10.5281/zenodo.7794711
title: Dataset for Energy Resource Management Considering Participation in the Wholesale Day-Ahead Market

description: This release is associated with a paper entitled "A Novel Bilevel Programming Formulation for Optimizing the Interaction of Distribution System Operators and GENCOs in Day-Ahead Markets". In this document, we provide the mathematical manipulation employed to linearize an MPEC problem that models the market-clearing process considering the participation of generation companies and distribution operators in the day-ahead market. Additionally, we provide a numerical example of the pricing mechanism designed for solving the optimization problem. Finally, we include information regarding the transmission and distribution power systems adopted to present the results shown in the paper. These systems are modified versions of the IEEE 14-bus and the IEEE 34-bus, respectively. Three renewable non-dispatchable generators were added to the original 14-bus system, while 5 dispatchable generators and 3 non-dispatchable generators were added to the distribution system. 13 load shapes were considered as well as 5 scenarios for each uncertain variable (wind velocity, solar irradiance, distribution load oscillation, and transmission load oscillation). The data regarding the costs and physical parameters of each of the power system's elements are provided in this document.
DOI: 10.4121/20103500
title: Hypersensitive response of Brassica plants against cabbage white butterfly eggs is specifically induced by egg-associated secretions

description: In study we characterize at cellular and molecular level a few plant immunity responses associated with a hypersensitive response (HR)-like cell death induced by butterfly eggs in Brassicaceae plants.<br>This dataset is part of Chapter 3 of the PhD thesis "E(gg)xit strategy of plant defense: Evolution and genetics of a butterfly egg-triggered cell death"<br><br>
DOI: 10.4121/20103500.v1
title: Hypersensitive response of Brassica plants against cabbage white butterfly eggs is specifically induced by egg-associated secretions

description: In study we characterize at cellular and molecular level a few plant immunity responses associated with a hypersensitive response (HR)-like cell death induced by butterfly eggs in Brassicaceae plants.<br>This dataset is part of Chapter 3 of the PhD thesis "E(gg)xit strategy of plant defense: Evolution and genetics of a butterfly egg-triggered cell death"<br><br>
DOI: 10.18112/openneuro.ds004537.v1.0.0
title: A testbed for development and comparison of multi-modal brain MRI harmonisation approaches
DOI: 10.4121/20103533
title: Pieris brassicae egg-induced cell death of Brassica nigra is controlled by a single locus containing a cluster of TIR-NBS-LRR receptors

description: In this study, we found that P. brassicae egg-induced HR segregates as a Mendelian trait in wild accessions of black mustard B. nigra L. Through bulk-segregant analysis coupled with whole-genome sequencing (BSAseq),we identified a single dominant locus on chromosome B3 which we named PEK (Pieris egg-killing locus).<br>This dataset is part of Chapter 5 of the PhD thesis "E(gg)xit strategy of plant defense: Evolution and genetics of a butterfly egg-triggered cell death"
DOI: 10.4121/20103533.v1
title: Pieris brassicae egg-induced cell death of Brassica nigra is controlled by a single locus containing a cluster of TIR-NBS-LRR receptors

description: In this study, we found that P. brassicae egg-induced HR segregates as a Mendelian trait in wild accessions of black mustard B. nigra L. Through bulk-segregant analysis coupled with whole-genome sequencing (BSAseq),we identified a single dominant locus on chromosome B3 which we named PEK (Pieris egg-killing locus).<br>This dataset is part of Chapter 5 of the PhD thesis "E(gg)xit strategy of plant defense: Evolution and genetics of a butterfly egg-triggered cell death"
DOI: 10.4121/20103536
title: Insect egg-killing: a new front on the evolutionary arms-race between brassicaceous plants and pierid butterflies

description: A novel front-line of plant defence is the killing of herbivorous insect eggs with an HR reponse. We test whether this HR-based egg-killing plant trait has an evolutionary basis in the plant–insect arms-race. We studied the phylogenetic distribution of this trait, its egg-killing effect on and elicitation by butterflies, by screening 31 Brassicales species, and nine Pieridae species.<br><br>This dataset is part of Chapter 2 of the PhD thesis "E(gg)xit strategy of plant defense: Evolution and genetics of a butterfly egg-triggered cell death"
DOI: 10.4121/20103536.v1
title: Insect egg-killing: a new front on the evolutionary arms-race between brassicaceous plants and pierid butterflies

description: A novel front-line of plant defence is the killing of herbivorous insect eggs with an HR reponse. We test whether this HR-based egg-killing plant trait has an evolutionary basis in the plant–insect arms-race. We studied the phylogenetic distribution of this trait, its egg-killing effect on and elicitation by butterflies, by screening 31 Brassicales species, and nine Pieridae species.<br><br>This dataset is part of Chapter 2 of the PhD thesis "E(gg)xit strategy of plant defense: Evolution and genetics of a butterfly egg-triggered cell death"
DOI: 10.17632/8rs9hdp8cm.1
title: Scour protection layer biofoulling fauna

description: The biofouling taxa from the scour protection layer from the southern North Sea. The data used in this study were extracted from the Biodiversity Information System on Artificial structures (BISAR; https://critterbase.awi.de/), a database holding biological and environmental data related to artificial hard substrates such as offshore renewable devices and oil and gas platforms). The final extracted dataset consisted of 186 SPL samples: 28 from BelWind, 33 from C-Power, 13 from Princess Amalia, 108 from Horns Rev, and 4 from the older gas platform L10-AD. The dataset comprises five sheets, each derived from the raw data. The initial sheet presents the unprocessed dataset, while the second sheet provides the cleaned dataset utilized in the analysis. Additionally, the remaining sheets contain subsets of the cleaned data, specifically extracted for examining various aspects of the manuscript currently under preparation.
DOI: 10.17632/8rs9hdp8cm.2
title: Scour protection layer biofoulling fauna

description: The biofouling taxa from the scour protection layer from the southern North Sea. The data used in this study were extracted from the Biodiversity Information System on Artificial structures (BISAR; https://critterbase.awi.de/), a database holding biological and environmental data related to artificial hard substrates such as offshore renewable devices and oil and gas platforms). The final extracted dataset consisted of 186 SPL samples: 28 from BelWind, 33 from C-Power, 13 from Princess Amalia, 108 from Horns Rev, and 4 from the older gas platform L10-AD. The dataset comprises five sheets, each derived from the raw data. The initial sheet presents the unprocessed dataset, while the second sheet provides the cleaned dataset utilized in the analysis. Additionally, the remaining sheets contain subsets of the cleaned data, specifically extracted for examining various aspects of the manuscript currently under preparation.
DOI: 10.5281/zenodo.1286662
title: Biowordlists

description: This describes the output files for the BioWordlists project. These files are ancillary data for other text mining projects.

Each file is a tab-delimited file with one term per line. The first column is a unique ID. The second column is the main name of the term. The third column is a pipe-delimited set of the synonyms for this term (including the main term).

<strong>terms_genes.tsv:</strong> This is a list of all human genes with synonyms. The first column is the HUGO gene ID. It includes an additional fourth column is the Entrez gene ID. Genes are built using the NCBI Gene resource with synonyms from the UMLS Metathesaurus.

<strong>terms_drugs.tsv:</strong> This is a list of all drugs from the WikiData resource. It also includes some more general terms and inhibitors terms for all genes in the gene list.

<strong>terms_cancers.tsv:</strong> This is a list of specific cancer types from the Disease Ontology. General cancer terms have been removed and synonyms added from the UMLS Metathesaurus.

<strong>terms_variants.tsv:</strong> Common mutations, aberrations and other 'omic events that may occur to a gene, especially in the cancer setting.

<strong>terms_conflicting.tsv:</strong> Several common biomedical terms that are easily confused with other useful concepts. An examples is "Cox Regression". This list is used to identify these to reduce ambiguity.
DOI: 10.5281/zenodo.1299396
title: Biowordlists

description: This describes the output files for the BioWordlists project. These files are ancillary data for other text mining projects.

Each file is a tab-delimited file with one term per line. The first column is a unique ID. The second column is the main name of the term. The third column is a pipe-delimited set of the synonyms for this term (including the main term).

<strong>terms_genes.tsv:</strong> This is a list of all human genes with synonyms. The first column is the HUGO gene ID. It includes an additional fourth column is the Entrez gene ID. Genes are built using the NCBI Gene resource with synonyms from the UMLS Metathesaurus.

<strong>terms_drugs.tsv:</strong> This is a list of all drugs from the WikiData resource. It also includes some more general terms and inhibitors terms for all genes in the gene list.

<strong>terms_cancers.tsv:</strong> This is a list of specific cancer types from the Disease Ontology. General cancer terms have been removed and synonyms added from the UMLS Metathesaurus.

<strong>terms_variants.tsv:</strong> Common mutations, aberrations and other 'omic events that may occur to a gene, especially in the cancer setting.

<strong>terms_conflicting.tsv:</strong> Several common biomedical terms that are easily confused with other useful concepts. An examples is "Cox Regression". This list is used to identify these to reduce ambiguity.

<strong>terms_proteins.tsv:</strong> Human protein names from UniProt with synonyms.
DOI: 10.5281/zenodo.2528593
title: BioWordlists

description: This describes the output files for the BioWordlists project. These files are ancillary data for other text mining projects.

Each file is a tab-delimited file with one term per line. The first column is a unique ID. The second column is the main name of the term. The third column is a pipe-delimited set of the synonyms for this term (including the main term).

<strong>terms_genes.tsv:</strong> This is a list of all human genes with synonyms. The first column is the HUGO gene ID. It includes an additional fourth column is the Entrez gene ID. Genes are built using the NCBI Gene resource with synonyms from the UMLS Metathesaurus.

<strong>terms_drugs.tsv:</strong> This is a list of all drugs from the WikiData resource. It also includes some more general terms and inhibitors terms for all genes in the gene list.

<strong>terms_cancers.tsv:</strong> This is a list of specific cancer types from the Disease Ontology. General cancer terms have been removed and synonyms added from the UMLS Metathesaurus.

<strong>terms_variants.tsv:</strong> Common mutations, aberrations and other 'omic events that may occur to a gene, especially in the cancer setting.

<strong>terms_conflicting.tsv:</strong> Several common biomedical terms that are easily confused with other useful concepts. An examples is "Cox Regression". This list is used to identify these to reduce ambiguity.

<strong>terms_proteins.tsv:</strong> Human protein names from UniProt with synonyms.
DOI: 10.5281/zenodo.4268806
title: BioWordlists

description: This describes the output files for the BioWordlists project. These files are ancillary data for other text mining projects. Each file is a tab-delimited file with one term per line. The first column is a unique ID. The second column is the main name of the term. The third column is a pipe-delimited set of the synonyms for this term (including the main term). <strong>terms_genes.tsv:</strong> This is a list of all human genes with synonyms. The first column is the HUGO gene ID. It includes an additional fourth column is the Entrez gene ID. Genes are built using the NCBI Gene resource with synonyms from the UMLS Metathesaurus. <strong>terms_drugs.tsv:</strong> This is a list of all drugs from the WikiData resource. It also includes some more general terms and inhibitors terms for all genes in the gene list. <strong>terms_cancers.tsv:</strong> This is a list of specific cancer types from the Disease Ontology. General cancer terms have been removed and synonyms added from the UMLS Metathesaurus. <strong>terms_variants.tsv:</strong> Common mutations, aberrations and other 'omic events that may occur to a gene, especially in the cancer setting. <strong>terms_conflicting.tsv:</strong> Several common biomedical terms that are easily confused with other useful concepts. An examples is "Cox Regression". This list is used to identify these to reduce ambiguity. <strong>terms_proteins.tsv:</strong> Human protein names from UniProt with synonyms.
DOI: 10.5281/zenodo.5032501
title: BioWordlists

description: This describes the output files for the BioWordlists project. These files are ancillary data for other text mining projects. Each file is a tab-delimited file with one term per line. The first column is a unique ID. The second column is the main name of the term. The third column is a pipe-delimited set of the synonyms for this term (including the main term). <strong>terms_genes.tsv:</strong> This is a list of all human genes with synonyms. The first column is the HUGO gene ID. It includes an additional fourth column is the Entrez gene ID. Genes are built using the NCBI Gene resource with synonyms from the UMLS Metathesaurus. <strong>terms_drugs.tsv:</strong> This is a list of all drugs from the WikiData resource. It also includes some more general terms and inhibitors terms for all genes in the gene list. <strong>terms_cancers.tsv:</strong> This is a list of specific cancer types from the Disease Ontology. General cancer terms have been removed and synonyms added from the UMLS Metathesaurus. <strong>terms_variants.tsv:</strong> Common mutations, aberrations and other 'omic events that may occur to a gene, especially in the cancer setting. <strong>terms_conflicting.tsv:</strong> Several common biomedical terms that are easily confused with other useful concepts. An examples is "Cox Regression". This list is used to identify these to reduce ambiguity. <strong>terms_proteins.tsv:</strong> Human protein names from UniProt with synonyms.
DOI: 10.5281/zenodo.7525586
title: BioWordlists

description: This describes the output files for the BioWordlists project. These files are ancillary data for other text mining projects. Each file is a tab-delimited file with one term per line. The first column is a unique ID. The second column is the main name of the term. The third column is a pipe-delimited set of the synonyms for this term (including the main term). <strong>terms_genes.tsv:</strong> This is a list of all human genes with synonyms. The first column is the HUGO gene ID. It includes an additional fourth column is the Entrez gene ID. Genes are built using the NCBI Gene resource with synonyms from the UMLS Metathesaurus. <strong>terms_drugs.tsv:</strong> This is a list of all drugs from the WikiData resource. It also includes some more general terms and inhibitors terms for all genes in the gene list. <strong>terms_cancers.tsv:</strong> This is a list of specific cancer types from the Disease Ontology. General cancer terms have been removed and synonyms added from the UMLS Metathesaurus. <strong>terms_variants.tsv:</strong> Common mutations, aberrations and other 'omic events that may occur to a gene, especially in the cancer setting. <strong>terms_conflicting.tsv:</strong> Several common biomedical terms that are easily confused with other useful concepts. An examples is "Cox Regression". This list is used to identify these to reduce ambiguity. <strong>terms_proteins.tsv:</strong> Human protein names from UniProt with synonyms.
DOI: 10.5281/zenodo.1286661
title: BioWordlists

description: This describes the output files for the BioWordlists project. These files are ancillary data for other text mining projects. Each file is a tab-delimited file with one term per line. The first column is a unique ID. The second column is the main name of the term. The third column is a pipe-delimited set of the synonyms for this term (including the main term). <strong>terms_genes.tsv:</strong> This is a list of all human genes with synonyms. The first column is the HUGO gene ID. It includes an additional fourth column is the Entrez gene ID. Genes are built using the NCBI Gene resource with synonyms from the UMLS Metathesaurus. <strong>terms_drugs.tsv:</strong> This is a list of all drugs from the WikiData resource. It also includes some more general terms and inhibitors terms for all genes in the gene list. <strong>terms_cancers.tsv:</strong> This is a list of specific cancer types from the Disease Ontology. General cancer terms have been removed and synonyms added from the UMLS Metathesaurus. <strong>terms_variants.tsv:</strong> Common mutations, aberrations and other 'omic events that may occur to a gene, especially in the cancer setting. <strong>terms_conflicting.tsv:</strong> Several common biomedical terms that are easily confused with other useful concepts. An examples is "Cox Regression". This list is used to identify these to reduce ambiguity. <strong>terms_proteins.tsv:</strong> Human protein names from UniProt with synonyms.