cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.14867030
title: Human Myeloma Cell Line (HMCL) NCATS MIPE 4.0 Drug Screen Dataset

description: Abstract

Multiple myeloma, a hematopoietic malignancy of terminally differentiated B cells, is the second most common hematological malignancy after leukemia. While patients have benefited from numerous advances in treatment in recent years resulting in significant increases to average survival time following diagnosis, myeloma remains incurable and relapse is common. To help identify novel therapeutic agents with efficacy against the disease and to search for biomarkers associated with differential response to treatment, a large-scale pharmacological screen was performed with 1,912 small molecule compounds tested at 11 doses for 47 human myeloma cell lines (HMCL). Raw and processed versions of the drug screen dataset are provided, as well as supportive information including drug and cell line metadata and high-level characterization of the most salient features of each. The dataset is publicly available at Zenodo and the workflow code used for data processing and generation of supporting figures and tables can be found at https://github.com/khughitt/hmcl-drug-screen-pipeline.

Overview

The dataset shared here contains the raw and processed versions of a high throughput small moleculescreening dataset, as as supporting tables and figures.

The computational pipeline used to generate the dataset is available at: https://github.com/khughitt/hmcl-drug-screen-pipeline

Data organization

The .zip file available on Zenodo contains the complete output from the computational pipeline linked to above.

Data and figures are organized into subfolders relating to the various pipeline steps.

Files & folders:




cell_viability/
Average cell line viability table


clusters/
Cell line and drug clustering results


combined_viability_matrices/
All viability measurements combined into one row per drug/cell; used infer drug-drug and cell-cell similarity matrices


drug_curves/
Table with one row per drug/cell line pair containing the curve fitting model input fit parameters


drug_plates/
Drug screen viability measurements at different levels of processing, arranged with one column per plate


drug_response_matrices/
Cell x drug matrices, with separate matrices reporting the viability measurements associated with each drug concentration,  as well as matrices containing inferred AC-50 and log AC-50 values.


fig/
Summary and quality assurance figures generated from the drug screen data


metadata/
Cell line, drug, and plate-level metadata


mutations/


Cell line mutation predictions with identifiers harmonized to match those used in the drug screen (source: Keats Lab)



projections/
Cell and drug similarity matrix PCA and UMAP projections


raw/
Raw version of the drug screen dataset, including the data for cell lines which were filtered out in the pipeline due to quality purposes


similarity/
Cell-cell and drug-drug similarity matrices


datapackage.yml


Metadata for the provided data resources including sha256 checksums, human-readible descriptions, column types, etc. (see: https://datapackage.org/)
DOI: 10.5281/zenodo.14902712
title: Human Myeloma Cell Line (HMCL) NCATS MIPE 4.0 Drug Screen Dataset

description: Abstract

Multiple myeloma, a hematopoietic malignancy of terminally differentiated B cells, is the second most common hematological malignancy after leukemia. While patients have benefited from numerous advances in treatment in recent years resulting in significant increases to average survival time following diagnosis, myeloma remains incurable and relapse is common. To help identify novel therapeutic agents with efficacy against the disease and to search for biomarkers associated with differential response to treatment, a large-scale pharmacological screen was performed with 1,912 small molecule compounds tested at 11 doses for 47 human myeloma cell lines (HMCL). Raw and processed versions of the drug screen dataset are provided, as well as supportive information including drug and cell line metadata and high-level characterization of the most salient features of each. The dataset is publicly available at Zenodo and the workflow code used for data processing and generation of supporting figures and tables can be found at https://github.com/khughitt/hmcl-drug-screen-pipeline.

Overview

The dataset shared here contains the raw and processed versions of a high throughput small molecule screening dataset, as as supporting tables and figures.

The computational pipeline used to generate the dataset is available at: https://github.com/khughitt/hmcl-drug-screen-pipeline

Data organization

The .zip file available on Zenodo contains the complete output from the computational pipeline linked to above.

Data and figures are organized into subfolders relating to the various pipeline steps.

Files & folders:




drugs/
Drug curves, cell line x drug AC-50 matrix, and drug metadata tables.


manuscript/
Figures and tables generated by the pipeline for the manuscript, including the harmonized cell line metadata table ("table1.tsv")


mutations/


Cell line mutation predictions with identifiers harmonized to match those used in the drug screen (source: Keats Lab)



plates/


Drug screen viability measurements at different levels of processing, arranged with one column per plate ("raw.tsv", "raw_filtered.tsv", "normed.tsv", "background_adjusted.tsv"), plate-level metadata ("metadata.tsv"), the compued background plate ("background.tsv"), and plate images used for QA.



raw/
Raw version of the drug screen dataset, including the data for cell lines which were filtered out in the pipeline due to quality purposes


datapackage.yml


Metadata for the provided data resources including sha256 checksums, human-readible descriptions, column types, etc. (see: https://datapackage.org/)
DOI: 10.5281/zenodo.14875153
title: Accelerated Himalayan river meandering and dynamics due to climate change

description: Source Data for "Accelerated Himalayan river meandering and dynamics due to climate change"
DOI: 10.5281/zenodo.14913290
title: Accelerated Himalayan river meandering and dynamics due to climate change

description: Source Data for "Accelerated Himalayan river meandering and dynamics due to climate change"
DOI: 10.15468/dl.5qbf8h
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Miconia calvescens DC.",
 "Country is New Caledonia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001969-250221090833381/datasets/export for details.
DOI: 10.25345/c5qb9vj1w
title: MassIVE MSV000097198 - Proteomics of bacterial and ovarian cancer ascites extracellular vesicles
title: Extracellular vesicles (EVs) are present in body fluids, and they can be disease biomarkers. Emerging evidence has proven that EVs are released not only from mammalian cells but also from bacteria. Ovarian cancer has a dismal prognosis because of difficulties in early detection. This study aimed to identify bacterial EV (BEV) proteins associated with ovarian cancer. Fifteen patients with ovarian cancer or benign tumors were recruited, and EVs were isolated from the ascites. BEVs were recovered from seven in vitro-cultured strains of bacteria present in the vaginal microbiota, and LC-MS/MS analysis was performed. The detected peptide data were annotated to both human and bacterial references, and the human data showed that the profiles of cancer EVs were distinct from those of patients with benign tumors.
DOI: 10.15468/dl.kahfmb
title: Occurrence Download

description: A dataset containing 109 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Miconia crenata (Vahl) Michelang.",
 "Country is Australia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 109 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001970-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fp833n
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Miconia nervosa (Sm.) Triana",
 "Country is Australia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 17 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001971-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kwd6y8
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Miconia racemosa (Aubl.) DC.",
 "Country is Australia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 15 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001972-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t4shnr
title: Occurrence Download

description: A dataset containing 64 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mikania micrantha Kunth",
 "Country is Australia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 64 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001973-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25574/29771
title: Chandra X-ray Observatory ObsId 29771

description: eROSITA treasure hunt: Accurate localization of high-velocity X-ray sources
DOI: 10.5281/zenodo.12676776
title: A Dataset of Questionnaire on the Domestic Image of China and Media Use for China's Post-90s Generation

description: The dataset consists of 5 files:

(1) Readme-China-Post90s.pdf

(2) Questionnaire-China-Post90s.pdf

(3) Questionnaire-China-Post90s-CN.pdf

(4) SurveyData-China-Post90s.csv

(5) SurveyData-China-Post90s.xlsx

Please see Readme file “Readme-China-Post90s.pdf”.
DOI: 10.5281/zenodo.12676777
title: A Dataset of Questionnaire on the Domestic Image of China and Media Use for China's Post-90s Generation

description: The dataset consists of four files:(1) Readme-China-Post90s.pdf(2) Questionnaire-China-Post90s.pdf(3) SurveyData-China-Post90s.csv(4) SurveyData-China-Post90s.xlsx

Please see Readme file “Readme-China-Post90s.pdf”.
DOI: 10.5281/zenodo.14191507
title: A Dataset of Questionnaire on the Domestic Image of China and Media Use for China's Post-90s Generation

description: The dataset consists of 5 files:

(1) Readme-China-Post90s.pdf

(2) Questionnaire-China-Post90s.pdf

(3) Questionnaire-China-Post90s-CN.pdf

(4) SurveyData-China-Post90s.csv

(5) SurveyData-China-Post90s.xlsx

Please see Readme file “Readme-China-Post90s.pdf”.
DOI: 10.5281/zenodo.14191687
title: A Dataset of Questionnaire on the Domestic Image of China and Media Use for China's Post-90s Generation

description: The dataset consists of 5 files:

(1) Readme-China-Post90s.pdf

(2) Questionnaire-China-Post90s.pdf

(3) Questionnaire-China-Post90s-CN.pdf

(4) SurveyData-China-Post90s.csv

(5) SurveyData-China-Post90s.xlsx

Please see Readme file “Readme-China-Post90s.pdf”.
DOI: 10.5281/zenodo.14643473
title: A Dataset of Questionnaire on the Domestic Image of China and Media Use for China's Post-90s Generation

description: The dataset consists of 5 files:

(1) Readme-China-Post90s.pdf

(2) Questionnaire-China-Post90s.pdf

(3) Questionnaire-China-Post90s-CN.pdf

(4) SurveyData-China-Post90s.csv

(5) SurveyData-China-Post90s.xlsx

Please see Readme file “Readme-China-Post90s.pdf”.
DOI: 10.5281/zenodo.14876817
title: A Dataset of Questionnaire on the Domestic Image of China and Media Use for China's Post-90s Generation

description: The dataset consists of 5 files:

(1) Readme-China-Post90s.pdf

(2) Questionnaire-China-Post90s.pdf

(3) Questionnaire-China-Post90s-CN.pdf

(4) SurveyData-China-Post90s.csv

(5) SurveyData-China-Post90s.xlsx

Please see Readme file “Readme-China-Post90s.pdf”.
DOI: 10.15468/dl.g3rt7n
title: Occurrence Download

description: A dataset containing 65 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mimosa diplotricha C.Wright",
 "Country is Australia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 65 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001974-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.v8jxkp
title: Occurrence Download

description: A dataset containing 26146 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mimosa pigra L.",
 "Country is Australia",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 26146 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001976-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ebj9ag
title: Occurrence Download

description: A dataset containing 711 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "OccurrenceStatus is Present",
 "TaxonKey is Lonicera japonica Thunb."
 ]
}

 The dataset includes 711 records from 95 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001977-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bs5f7x
title: Occurrence Download

description: A dataset containing 1475 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myriophyllum aquaticum (Vell.) Verdc.",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 1475 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001978-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cbdv8z
title: Occurrence Download

description: A dataset containing 3282 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myriophyllum aquaticum (Vell.) Verdc.",
 "Country is Belgium",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 3282 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001979-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.evj7z6
title: Occurrence Download

description: A dataset containing 2167 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myriophyllum aquaticum (Vell.) Verdc.",
 "Country is France",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 2167 records from 194 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001980-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k36eav
title: Occurrence Download

description: A dataset containing 2605 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myriophyllum heterophyllum Michx.",
 "Country is United States of America",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 2605 records from 123 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001981-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d83r8b
title: Occurrence Download

description: A dataset containing 3446 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Nymphoides peltata (S.G.Gmel.) Kuntze",
 "Country is Sweden",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 3446 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001982-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.du24d8
title: Occurrence Download

description: A dataset containing 35658 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pocillopora damicornis (Linnaeus, 1758)"
 ]
}

 The dataset includes 35658 records from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001986-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hh5a9y
title: Occurrence Download

description: A dataset containing 35658 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pocillopora damicornis (Linnaeus, 1758)"
 ]
}

 The dataset includes 35658 records from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001984-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u6392z
title: Occurrence Download

description: A dataset containing 54 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Nassella neesiana (Trin. & Rupr.) Barkworth",
 "Country is New Zealand",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 54 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001985-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14913329
title: CHUV- Rheumatology Multimodal Program for Chronic Musculoskeletal Pain - Prospective DATA - 349 patients

description: Database of 349 patients from all patients who participated in a Multidisciplinary Pain Program (MPP) for with MCPS at a tertiary center in Lausanne, Switzerland from March 2018 (MPP inauguration) to December 2023 (end of data collection). 

 

All patient's identification cues excluded.
DOI: 10.5281/zenodo.14913330
title: CHUV- Rheumatology Multimodal Program for Chronic Musculoskeletal Pain - Prospective DATA - 349 patients

description: Database of 349 patients from all patients who participated in a Multidisciplinary Pain Program (MPP) for with MCPS at a tertiary center in Lausanne, Switzerland from March 2018 (MPP inauguration) to December 2023 (end of data collection). 

 

All patient's identification cues excluded.
DOI: 10.21227/9xnd-f613
title: Fluid Flow Images

description: The dataset comprises images generated using computational fluid dynamics (CFD) simulations for two cases: flow past an elliptic cylinder and flow past an aerofoil. Here are the details:Elliptic Cylinder Dataset:Images: 124 for low-speed and 124 for high-speed.Conditions: Simulated for Reynolds numbers of 200 (low-speed) and 5000 (high-speed).Aerofoil Dataset:Images: 250 for low-speed and 250 for high-speed.Conditions: Simulated under similar Reynolds number settings of 200 and 5000 for laminar and turbulent flows, respectively.The datasets were generated and captured via CFD simulations using OpenFOAM software. Images were post-processed with ParaView to standardize resolution.
DOI: 10.15468/dl.g9q6b4
title: Occurrence Download

description: A dataset containing 451 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Oenothera biennis L.",
 "Country is Spain",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 451 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001987-250221090833381/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.24598707
title: Supplementary Material

description: The supplementary file, dataset, and source code for the paper “Understanding the potentially confounding effect of test suite size in test effectiveness evaluation”.
DOI: 10.6084/m9.figshare.24598707.v4
title: Supplementary Material

description: The supplementary file, dataset, and source code for the paper “Understanding the potentially confounding effect of test suite size in test effectiveness evaluation”.
DOI: 10.6084/m9.figshare.24598707.v5
title: Supplementary Material

description: The supplementary file, dataset, and source code for the paper “Understanding the potentially confounding effect of test suite size in test effectiveness evaluation”.
DOI: 10.15468/dl.3jvwy2
title: Occurrence Download

description: A dataset containing 1510 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Opuntia ficus-indica (L.) Mill.",
 "Country is France",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 1510 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001988-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2rvcqc
title: Occurrence Download

description: A dataset containing 4671 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Opuntia ficus-indica (L.) Mill.",
 "Country is Spain",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 4671 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001990-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zmbdru
title: Occurrence Download

description: A dataset containing 35658 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pocillopora damicornis (Linnaeus, 1758)"
 ]
}

 The dataset includes 35658 records from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001992-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kbsc58
title: Occurrence Download

description: A dataset containing 22302 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cucumis sativus L."
 ]
}

 The dataset includes 22302 records from 251 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0123771-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x68eh3
title: Occurrence Download

description: A dataset containing 289 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Andropogon abyssinicus R.Br. ex Fresen."
 ]
}

 The dataset includes 289 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005973-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.