cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.4kxdvs
title: Occurrence Download

description: A dataset containing 17301 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tecoma stans (L.) Juss. ex Kunth"
 ]
}

 The dataset includes 17301 records from 429 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0331177-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6u6aac
title: Occurrence Download

description: A dataset containing 111 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nothofagus alessandrii Espinosa"
 ]
}

 The dataset includes 111 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024487-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6ohqqj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Cyrtanthus × henryae Traub",
 "ScientificName is Cyrtanthus × henryae",
 "ScientificName is Cyrtanthus x henryae",
 "ScientificName is Cyrtanthus x henryae Traub",
 "ScientificName is Cyrtanthus xhenryae Traub",
 "ScientificName is Cyrtanthus henryae Traub"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004467-160803222355964/datasets/export for details.
DOI: 10.15468/dl.rr2u2w
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ireland",
 "BasisOfRecord is one of (Observation, Human Observation, Material sample, Literature Occurrence, Specimen, Unknown evidence, Machine Observation)",
 "Year is less than or equal to 1000",
 "Year is greater than or equal to 2020",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0081398-200221144449610/datasets/export for details.
DOI: 10.15468/dl.nq4sgj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Allobates granti (Kok, MacCulloch, Gaucher, Poelman, Bourne, Lathrop & Lenglet, 2006)",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008317-231120084113126/datasets/export for details.
DOI: 10.15468/dl.x44zke
title: Occurrence Download

description: A dataset containing 86 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Micropholis cayennensis T.D.Penn."
 ]
}

 The dataset includes 86 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0178451-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jcxht4
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Galanthus × valentinei Beck nothosubsp. subplicatus (Zeybek) A.P.Davis",
 "ScientificName is Galanthus × valentinei nothosubsp. subplicatus",
 "ScientificName is Galanthus x valentinei nothosubsp. subplicatus",
 "ScientificName is Galanthus x valentinei Beck nothosubsp. subplicatus (Zeybek) A.P.Davis",
 "ScientificName is Galanthus xvalentinei Beck nothosubsp. subplicatus (Zeybek) A.P.Davis",
 "ScientificName is Galanthus valentinei Beck nothosubsp. subplicatus (Zeybek) A.P.Davis"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004476-160803222355964/datasets/export for details.
DOI: 10.15468/dl.w4d583
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Notopleura albens C.M.Taylor"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0178452-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zvmlwn
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Habranthus × floryi Traub",
 "ScientificName is Habranthus × floryi",
 "ScientificName is Habranthus x floryi",
 "ScientificName is Habranthus x floryi Traub",
 "ScientificName is Habranthus xfloryi Traub",
 "ScientificName is Habranthus floryi Traub"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004482-160803222355964/datasets/export for details.
DOI: 10.15468/dl.ghjazh
title: Occurrence Download

description: A dataset containing 9877 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melastoma malabathricum L.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 9877 records from 135 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039948-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qxr8zd
title: Occurrence Download

description: A dataset containing 152 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Palicourea hirta (Miq.) Delprete & J.H.Kirkbr."
 ]
}

 The dataset includes 152 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0178453-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ilge3k
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Haemanthus × nicolaii Traub",
 "ScientificName is Haemanthus × nicolaii",
 "ScientificName is Haemanthus x nicolaii",
 "ScientificName is Haemanthus x nicolaii Traub",
 "ScientificName is Haemanthus xnicolaii Traub",
 "ScientificName is Haemanthus nicolaii Traub"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004494-160803222355964/datasets/export for details.
DOI: 10.15468/dl.7873eh
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oreopanax brunneus Decne. & Planch. ex Harms"
 ]
}

 The dataset includes 13 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0178454-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ctl9oi
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Narcissus × buxtonii K.Richt.",
 "ScientificName is Narcissus × buxtonii",
 "ScientificName is Narcissus x buxtonii",
 "ScientificName is Narcissus x buxtonii K.Richt.",
 "ScientificName is Narcissus xbuxtonii K.Richt.",
 "ScientificName is Narcissus buxtonii K.Richt."
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004500-160803222355964/datasets/export for details.
DOI: 10.15468/dl.qntclc
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Hippeastrum × batemanni Herb.",
 "ScientificName is Hippeastrum × batemanni",
 "ScientificName is Hippeastrum x batemanni",
 "ScientificName is Hippeastrum x batemanni Herb.",
 "ScientificName is Hippeastrum xbatemanni Herb.",
 "ScientificName is Hippeastrum batemanni Herb."
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004496-160803222355964/datasets/export for details.
DOI: 10.15468/dl.tpzun4
title: Occurrence Download

description: A dataset containing 191 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-109.56043 21.81895,-103.51527 21.81895,-103.51527 28.20903,-109.56043 28.20903,-109.56043 21.81895))",
 "TaxonKey is Phrynosoma orbiculare (Linnaeus, 1758)"
 ]
}

 The dataset includes 191 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0199424-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10964850
title: Dataset for "Reconfigurable spin-wave platform based on interplay between nanodots and waveguide in hybrid magnonic crystal"

description: The dataset consist of the data used to prepare the figures for the manuscript: 

Krzysztof Szulc, Mateusz Zelent, Maciej KrawczykReconfigurable spin-wave platform based on interplay between nanodots and waveguide in hybrid magnonic crystal.

Please read README.txt file to see the description of the data in the files
description: K.S. and M.K. acknowledge the financial support from National Science Centre, Poland, grants no. UMO-2020/39/I/ST3/02413 and UMO-2021/41/N/ST3/04478. K.S. acknowledges the financial support from the Foundation for Polish Science.
DOI: 10.15468/dl.32mfns
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "DatasetKey is Densidad poblacional para fauna medida por medio de cámaras trampa en los Valores Objeto de Conservación (VOC) del territorial Andes Occidentales",
 "TaxonKey is Leopardus tigrinus (Schreber, 1775)"
 ]
}

 The dataset includes 44 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0081400-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p599kc
title: Occurrence Download

description: A dataset containing 38493 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Specimen, Occurrence evidence, Material citation)",
 "TaxonKey is Puffinus griseus (Gmelin, 1789)",
 "Year 1980-2000"
 ]
}

 The dataset includes 38493 records from 133 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013729-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cg049p
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Lycoris × jacksoniana Traub",
 "ScientificName is Lycoris × jacksoniana",
 "ScientificName is Lycoris x jacksoniana",
 "ScientificName is Lycoris x jacksoniana Traub",
 "ScientificName is Lycoris xjacksoniana Traub",
 "ScientificName is Lycoris jacksoniana Traub"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004538-160803222355964/datasets/export for details.
DOI: 10.15468/dl.i3gqso
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is × Howardara Lehmiller",
 "ScientificName is × Howardara",
 "ScientificName is x Howardara",
 "ScientificName is × Howardara Lehmiller",
 "ScientificName is × Howardara Lehmiller",
 "ScientificName is × Howardara Lehmiller"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004519-160803222355964/datasets/export for details.
DOI: 10.15468/dl.xyhvgb
title: Occurrence Download

description: A dataset containing 2248 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyprinus carpio Linnaeus, 1758",
 {
 "or" : [
 "Country is Portugal",
 "Country is Spain"
 ]
 },
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2248 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0081401-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4x8ekf
title: Occurrence Download

description: A dataset listing the 20 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is The dataset of bat (Chiroptera, Mammalia) occurrences in Ukraine collected by the Ukrainian Bat Rehabilitation Center (2011-2022)"
 ]
}

 The dataset's 20 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021725-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nlkmot
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Philippines",
 "TaxonKey is Thunnus obesus (Lowe, 1839)"
 ]
}

 The dataset includes 12 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016954-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sskbuq
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Narcissus nothosect. Alleniae Fern.Casas",
 "ScientificName is Narcissus nothosect. Alleniae",
 "ScientificName is Narcissus nothosect. Alleniae",
 "ScientificName is Narcissus nothosect. Alleniae Fern.Casas",
 "ScientificName is Narcissus nothosect. Alleniae Fern.Casas",
 "ScientificName is Narcissus nothosect. Alleniae Fern.Casas"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004555-160803222355964/datasets/export for details.
DOI: 10.15468/dl.q3kdte
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Myrcia cristalensis Borhidi & O.Muñiz"
 ]
}

 The dataset includes 8 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0178455-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uehg1e
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Narcissus nothosect. Perangusti Fern.Casas",
 "ScientificName is Narcissus nothosect. Perangusti",
 "ScientificName is Narcissus nothosect. Perangusti",
 "ScientificName is Narcissus nothosect. Perangusti Fern.Casas",
 "ScientificName is Narcissus nothosect. Perangusti Fern.Casas",
 "ScientificName is Narcissus nothosect. Perangusti Fern.Casas"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004580-160803222355964/datasets/export for details.
DOI: 10.15468/dl.rj54g3
title: Occurrence Download

description: A dataset containing 67 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (CHN.15_1, CHN.31_1, CHN.1_1, CHN.24_1)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Avena fatua L., Clematis chaohuensis W.T.Wang & L.Q.Huang, Clematis jinzhaiensis Z.W.Xue & X.W.Wang)"
 ]
}

 The dataset includes 67 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021731-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e8aopk
title: Occurrence Download

description: A dataset containing 394 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Urogymnus asperrimus (Bloch & Schneider, 1801)"
 ]
}

 The dataset includes 394 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016962-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2w8bmy
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dendrolirium lanigerum (Seidenf.) H.Jiang"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0199444-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7jdnsv
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Narcissus nothosect. Maroccani Fern.Casas",
 "ScientificName is Narcissus nothosect. Maroccani",
 "ScientificName is Narcissus nothosect. Maroccani",
 "ScientificName is Narcissus nothosect. Maroccani Fern.Casas",
 "ScientificName is Narcissus nothosect. Maroccani Fern.Casas",
 "ScientificName is Narcissus nothosect. Maroccani Fern.Casas"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004576-160803222355964/datasets/export for details.
DOI: 10.15468/dl.9pkrsv
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Narcissus × abilii Rivas Mart.",
 "ScientificName is Narcissus × abilii",
 "ScientificName is Narcissus x abilii",
 "ScientificName is Narcissus x abilii Rivas Mart.",
 "ScientificName is Narcissus xabilii Rivas Mart.",
 "ScientificName is Narcissus abilii Rivas Mart."
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004582-160803222355964/datasets/export for details.
DOI: 10.15468/dl.c4hkvc
title: Occurrence Download

description: A dataset containing 137 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-7.46191 35.90329,-14.56348 31.57853,-18.14941 24.44715,-8.93848 23.93405,-8.30566 26.41549,-7.18066 28.90625,-0.85254 32.29456,-1.2041 35.67515,-3.38379 36.07397,-7.46191 35.90329))",
 "TaxonKey is Mauremys leprosa (Schweigger, 1812)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 137 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0030305-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17633/rd.brunel.29263622
title: Molecular Dynamics trajectory for Bacteriocin Plantaracin E peptide (plnE) - chain A in XTC format

description: Molecular Dynamics trajectory in XTC format. Original wild-type structure from PDBID 2JUI. Simulation was run using Amber 22 with f14SB force field. The file contains 70000 frames recorded every 10 ps.
DOI: 10.17633/rd.brunel.29263622.v1
title: Molecular Dynamics trajectory for Bacteriocin Plantaracin E peptide (plnE) - chain A in XTC format

description: Molecular Dynamics trajectory in XTC format. Original wild-type structure from PDBID 2JUI. Simulation was run using Amber 22 with f14SB force field. The file contains 70000 frames recorded every 10 ps.
DOI: 10.5281/zenodo.14891271
title: Dataset for "Biogeography and evolutionary patterns of temperate deciduous forests in the Northern Hemisphere"

description: ## Data and code to accompany the research entitled " Biogeography and evolutionary patterns of temperate deciduous forests in the Northern Hemisphere"

# There are two folders with (1) "data" and (2) "scripts".

# The "data" folder contains two additional folders ("Input" and "Output") with CSV and XLSX files with all the data used for analysis and produced from them. These data files are accompanied by a "metadata.xlsx" file with data descriptions.

# The "scripts" folder contains three scripts for the analyses described in the manuscript:

# Figure2.R -> Analyses to produce Figure 2# Figure3.R -> Analyses to produce Figure 3# Figure4.R -> Analyses to produce Figure 4

# If anything is unclear, please contact the corresponding author (XXX@gmail.com).
DOI: 10.5281/zenodo.13773116
title: Transitive prediction of small molecule function through alignment of high-content screening resources

description: This dataset supports the development of CLIP<sup>n</sup>, a contrastive-learning framework designed to align heterogeneous high-content screening (HCS) profile datasets.

GitHub link: https://github.com/AltschulerWu-Lab/CLIPn

Directory Structure

Data Files



HCS_datasets.pkl: Contains 13 high-content screening (HCS) datasets from multiple studies across 20 years.

Hypoxia.pkl: Contains 8 profile datasets using different assays and treated under diverse hypoxia durations.

Expression.pkl: Contains 2 transcriptional profile datasets and 6 image profile datasets for multimodal analysis.


Folders

raw_profiles:HCS13/- Contains raw data from 13 high-content screening (HCS) datasets. Each dataset includes meta and feature files. 

L1000/- CDRP_feature_exp.csv: Raw L1000 expression data from the CDRP dataset.- CDRP_meta_exp.csv: Metadata associated with the CDRP expression data.- LINCS_feature_exp.csv: Raw L1000 expression data from the LINCS dataset.- LINCS_meta_exp.csv: Metadata associated with the LINCS expression data.

RxRx3/- RxRx3_feature_final.csv: Profile data from the RxRx3 dataset.- RxRx3_meta_final.csv: Metadata from the RxRx3 dataset.

Uncharacterized_compounds/- NCI_cpnData.csv: Feature data for uncharacterized compounds from the NCI dataset.- NCI_cpnInfo.csv: Information about uncharacterized compounds in the NCI dataset.- Prestwick_UTSW_cpnData.csv: Feature data for uncharacterized compounds from the Prestwick UTSW dataset.- Prestwick_UTSW_cpnInfo.csv: Information about uncharacterized compounds from the Prestwick UTSW dataset.

Usage

import picklewith open('data.pkl', 'rb') as f:    data = pickle.load(f)

X = data['X']y = data['y']

Data Reference

For raw datasets from 13 HCS database, data and analysis pipeline for dataset 1 was obtained from https://www.science.org/doi/suppl/10.1126/science.1100709/suppl_file/perlman.som.zip; for datasets 2-3, data were shared by authors; For datasets 4-5, analysis code was downloaded from https://static-content.springer.com/esm/art%3A10.1038%2Fnbt.3419/MediaObjects/41587_2016_BFnbt3419_MOESM21_ESM.zip and data were shared by authors; For datasets 6-7, processed dataset was downloaded from AWS following instructions from https://github.com/carpenter-singh-lab/2022_Haghighi_NatureMethods, and replicate_level_cp_normalized.csv.gz features were used. For project datasets 8-13, datasets and analysis results were downloaded from https://zenodo.org/records/7352487. For RxRx3, dataset was obtained from https://www.rxrx.ai/rxrx3. L1000 transcript datasets were downloaded using the same link as datasets 6-7 and the processed transcript data files (named “replicate_level_l1k.csv”) were used.