cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17221772
title: In vivo Perturb-seq uncovers pathological obstacles to heart repair and regeneration by direct reprogramming

description: Direct induction of cardiomyocytes (iCMs) from fibroblasts represents a promising strategy for cardiac regeneration. However, the transdifferentiation efficiency in vivo remains low, and the barriers impeding in situ cardiomyocyte induction are incompletely understood. Leveraging an in vivo Perturb-seq platform tailored to complex pathological environments, we evaluated ~140 potential barriers of cardiomyocytes transdifferentiation. CALR was identified as a predominant barrier. Calr knockdown in vitro greatly enhanced iCMs induction efficiency and functionality, and dramatically accelerated iCMs induction in vivo, while concurrently improving cardiac function and mitigating fibrosis. Calr knockdown activates calcium signaling, promoting the activity of MEF2C to facilitate cardiac reprogramming or even substitute for exogenous MEF2C expression during iCMs induction. Overall, by defining the pathological obstacles to cardiomyocyte regeneration with in vivo Perturb-seq, our study offers new insights for achieving effective heart repair.

This repository contains the single-cell Perturb-seq data for eGFP-positive cells isolated at two critical time points: seven days and fourteen days post-myocardial infarction. Specifically, the data comprises the quality-controlled and normalized single-cell RNA sequencing expression matrix and the associated metadata, which includes annotations for cell cluster assignment and the specific perturbation identity for each cell.
DOI: 10.5281/zenodo.17221773
title: In vivo Perturb-seq uncovers pathological obstacles to heart repair and regeneration by direct reprogramming

description: Direct induction of cardiomyocytes (iCMs) from fibroblasts represents a promising strategy for cardiac regeneration. However, the transdifferentiation efficiency in vivo remains low, and the barriers impeding in situ cardiomyocyte induction are incompletely understood. Leveraging an in vivo Perturb-seq platform tailored to complex pathological environments, we evaluated ~140 potential barriers of cardiomyocytes transdifferentiation. CALR was identified as a predominant barrier. Calr knockdown in vitro greatly enhanced iCMs induction efficiency and functionality, and dramatically accelerated iCMs induction in vivo, while concurrently improving cardiac function and mitigating fibrosis. Calr knockdown activates calcium signaling, promoting the activity of MEF2C to facilitate cardiac reprogramming or even substitute for exogenous MEF2C expression during iCMs induction. Overall, by defining the pathological obstacles to cardiomyocyte regeneration with in vivo Perturb-seq, our study offers new insights for achieving effective heart repair.

This repository contains the single-cell Perturb-seq data for eGFP-positive cells isolated at two critical time points: seven days and fourteen days post-myocardial infarction. Specifically, the data comprises the quality-controlled and normalized single-cell RNA sequencing expression matrix and the associated metadata, which includes annotations for cell cluster assignment and the specific perturbation identity for each cell.
DOI: 10.11583/dtu.28749252
title: Trans experiment (FLOW) - raw lidar data

description: This dataset contains the raw lidar measurements from the Trans experiment which was part of the EU FLOW project [1]. It covers the entire span of the campaign and includes all data from all range gates of each lidar. Data from all the five lidars and ceilometer have been segregated and the corresponding files are named according to the aliases in read_me.txtDue to the large size, the archive of each lidar has been split into parts of 4 GB.We recommend the following steps in order to read/access the data:Download all the tar files into a local repository. (Note that after decompressing, the total size of the dataset will be approximately 2 TB).Run cat .tar.xz.part* &gt; .tar.xztar -xJf .tar.xzUse the functions from the notebook WES_data_paper_NB.ipynb (here) to read data for a particular range gate and period of time. Since the data storage format differs based on the lidar model, there are three different functions pertaining to the three different lidar models used in the experiment.Note that the processed ceilometer data can be accessed from DTU's SQL server:Server: data02.windenergy.dtu.dk (130.226.56.234, MySQL version 5.6.51 on port 3306)Username: flowuserPassword: FlowDataReaderAnd a processed subset of the lidar data can be accessed via: https://doi.org/10.11583/DTU.28390181.v1Reference:Mann, Jakob, Sjöholm, Mikael, Patel, Ansh, Thorsen, Gunhild Rolighed, Simon, Elliot, Hung, Lin-Ya & Gottschall, Julia 2025 Lidar measurements of turbulence in the marine atmospheric boundary layer. Under consideration for publication in the Wind Energy Science journal.<br>
DOI: 10.11583/dtu.28749252.v1
title: Trans experiment (FLOW) - raw lidar data

description: This dataset contains the raw lidar measurements from the Trans experiment which was part of the EU FLOW project [1]. It covers the entire span of the campaign and includes all data from all range gates of each lidar. Data from all the five lidars has been segregated and the corresponding files are named according to the aliases in read_me.txtDue to the large size, the archive of each lidar has been split into parts of 4 GB.We recommend the following steps in order to read/access the data:Download all the tar files into a local repository. (Note that after decompressing, the total size of the dataset will be approximately 2 TB).Run cat .tar.xz.part* &gt; .tar.xztar -xJf .tar.xzUse the functions from the notebook WES_data_paper_NB.ipynb (here) to read data for a particular range gate and period of time. Since the data storage format differs based on the lidar model, there are three different functions pertaining to the three different lidar models used in the experiment.Reference:Mann, Jakob, Sjöholm, Mikael, Patel, Ansh, Thorsen, Gunhild Rolighed, Simon, Elliot, Hung, Lin-Ya & Gottschall, Julia 2025 Lidar measurements of turbulence in the marine atmospheric boundary layer. Under consideration for publication in the Wind Energy Science journal.<br>
DOI: 10.11583/dtu.28749252.v2
title: Trans experiment (FLOW) - raw lidar data

description: This dataset contains the raw lidar measurements from the Trans experiment which was part of the EU FLOW project [1]. It covers the entire span of the campaign and includes all data from all range gates of each lidar. Data from all the five lidars and ceilometer have been segregated and the corresponding files are named according to the aliases in read_me.txtDue to the large size, the archive of each lidar has been split into parts of 4 GB.We recommend the following steps in order to read/access the data:Download all the tar files into a local repository. (Note that after decompressing, the total size of the dataset will be approximately 2 TB).Run cat .tar.xz.part* &gt; .tar.xztar -xJf .tar.xzUse the functions from the notebook WES_data_paper_NB.ipynb (here) to read data for a particular range gate and period of time. Since the data storage format differs based on the lidar model, there are three different functions pertaining to the three different lidar models used in the experiment.Note that the processed ceilometer data can be accessed from DTU's SQL server:Server: data02.windenergy.dtu.dk (130.226.56.234, MySQL version 5.6.51 on port 3306)Username: flowuserPassword: FlowDataReaderAnd a processed subset of the lidar data can be accessed via: https://doi.org/10.11583/DTU.28390181.v1Reference:Mann, Jakob, Sjöholm, Mikael, Patel, Ansh, Thorsen, Gunhild Rolighed, Simon, Elliot, Hung, Lin-Ya & Gottschall, Julia 2025 Lidar measurements of turbulence in the marine atmospheric boundary layer. Under consideration for publication in the Wind Energy Science journal.<br>
DOI: 10.15468/dl.csdx9j
title: Occurrence Download

description: A dataset listing the 2164967 species recorded in GBIF matching the query:
{
 "Year" : [
 "1990-2025"
 ]
}

 The dataset's 2164967 records were derived from 63465 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028290-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5gmkb8
title: Occurrence Download

description: A dataset containing 19 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Elattostachys globosa Adema"
 ]
}

 The dataset includes 19 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033574-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kyhcza
title: Occurrence Download

description: A dataset containing 973844 species occurrences available in GBIF matching the query:
{
 "GadmGid" : [
 "is CHN.26_1"
 ]
}

 The dataset includes 973844 records from 630 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033714-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w5bk3e
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Carditopsis flabellum (Reeve, 1843)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is MANAGED"
 ]
 }
 },
 {
 "not" : {
 "EstablishmentMeans" : [
 "is not null"
 ]
 }
 }
 ]
 },
 {
 "or" : [
 "OccurrenceStatus is Present",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is not null"
 ]
 }
 }
 ]
 }
 ]
}

 The dataset includes 52 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045226-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qentfn
title: Occurrence Download

description: A dataset containing 105 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Norops sericeus Barbour, 1934"
 ]
}

 The dataset includes 105 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010122-170826194755519/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jjka5h
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Corydalis parviflora Z.Y.Su & Lidén"
 ]
}

 The dataset includes 17 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012627-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pdxvrp
title: Occurrence Download

description: A dataset containing 743 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Echiochilon fruticosum Desf."
 ]
}

 The dataset includes 743 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033518-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j3kvps
title: Occurrence Download

description: A dataset containing 33640 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ephedra Tourn. ex L."
 ]
}

 The dataset includes 33640 records from 297 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010122-171219132708484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.chumu5
title: Occurrence Download

description: A dataset containing 37 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Elaeocarpus cassinoides A.Gray"
 ]
}

 The dataset includes 37 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033522-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fhspc3
title: Occurrence Download

description: A dataset containing 854 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cryptolepis buchananii R.Br. ex Roem. & Schult."
 ]
}

 The dataset includes 854 records from 51 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012629-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vp2wrk
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Microsciurus santanderensis (Hernández-Camacho, 1957)",
 "Country is Colombia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 9 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010123-160118175350007/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kvjtze
title: Occurrence Download

description: A dataset containing 161 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Furcraea cabuya Trel.",
 "Year 2012-2024"
 ]
}

 The dataset includes 161 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039588-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c5rh82
title: Occurrence Download

description: A dataset containing 4839 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Grallaria haplonota P.L.Sclater, 1877"
 ]
}

 The dataset includes 4839 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033570-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8xmybg
title: Occurrence Download

description: A dataset containing 1068 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sporophila ruficollis Cabanis, 1851"
 ]
}

 The dataset includes 1068 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011849-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kgsx77
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Crotalaria mudugensis Thulin"
 ]
}

 The dataset includes 5 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012642-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x9gw5s
title: Occurrence Download

description: A dataset containing 4902 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Lepidocolaptes albolineatus (Lafresnaye, 1846)"
 ]
}

 The dataset includes 4902 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033515-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cucxtc
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cardium pygmaeum Hisinger, 1837",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is MANAGED"
 ]
 }
 },
 {
 "not" : {
 "EstablishmentMeans" : [
 "is not null"
 ]
 }
 }
 ]
 },
 {
 "or" : [
 "OccurrenceStatus is Present",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is not null"
 ]
 }
 }
 ]
 }
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045229-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4kpgep
title: Occurrence Download

description: A dataset containing 331250 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dryopteris carthusiana (Vill.) H.P.Fuchs"
 ]
}

 The dataset includes 331250 records from 1060 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033640-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.brbgvr
title: Occurrence Download

description: A dataset containing 413506 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is The fossil collection (F) of the Muséum national d'Histoire naturelle (MNHN - Paris)"
 ]
}

 The dataset includes 413506 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019389-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2lynrz
title: CSD 2411792: Experimental Crystal Structure Determination

description: Related Article: Jian Li|2024|CSD Communication|||
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2lyns0
title: CSD 2411793: Experimental Crystal Structure Determination

description: Related Article: Jian Li|2024|CSD Communication|||
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.15468/dl.xcmcda
title: Occurrence Download

description: A dataset containing 484343589 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset includes 484343589 records from 16648 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015469-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r9jxt5
title: Occurrence Download

description: A dataset containing 37556 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 {
 "or" : [
 "Country is Brazil",
 "Country is Argentina",
 "Country is Uruguay"
 ]
 },
 "HasCoordinate is true",
 "TaxonKey is Myrcia DC.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 37556 records from 116 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008612-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.scjrm9
title: Occurrence Download

description: A dataset containing 397 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Trigona branneri Cockerell, 1912"
 ]
}

 The dataset includes 397 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008214-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b5htz7
title: Occurrence Download

description: A dataset containing 136 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Material sample"
 ]
 },
 "TaxonKey is Cacoecimorpha pronubana (Hübner, 1796-1799)"
 ]
}

 The dataset includes 136 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019217-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t8pn7c
title: Occurrence Download

description: A dataset containing 75 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Chinese Taipei",
 "TaxonKey is Rubus nagasawanus Koidz."
 ]
}

 The dataset includes 75 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008612-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.iiiduh
title: Occurrence Download

description: A dataset containing 411 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON((-79.695 -4.442,-79.484 -4.442,-79.484 -4.316,-79.695 -4.316,-79.695 -4.442))"
 ]
}

 The dataset includes 411 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008214-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gbf3zn
title: Occurrence Download

description: A dataset containing 354 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Micrurus browni Schmidt & Smith, 1943"
 ]
}

 The dataset includes 354 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014658-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.