cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.13837019
title: Single-cell landscape of innate and acquired drug resistance in acute myeloid leukemia: scRNA-seq and CyTOF processed datasets

description: This data was generated as part of the Tumor Profiler study. If you use it in your research, please cite:

Wegmann, R., Bonilla, X., Casanova, R. et al. Single-cell landscape of innate and acquired drug resistance in acute myeloid leukemia. Nat Commun 15, 9402 (2024). https://doi.org/10.1038/s41467-024-53535-4

Derived data - scRNA-seq

This is an R data set (.RDS) containing a SingleCellExperiment object with the following slots:





Assays:



counts: raw counts









colData: Cell-level metadata



 barcodes: The cell barcode

 fractionMT: Fraction mitochondrial genes per cell

 n_umi: Total number of UMIs per cell

 n_gene: Total number of genes per cell

 log_umi: log10 total number of UMIs per cell

 g2m_score: Cell cycle phase score for G2M

s_score: Cell cycle phase score for S

cycle_phase: predicted cell cycle phase

celltype_major_full_ct_name: Major cell type full name

celltype_major: Major cell type short name

celltype_final_full_ct_name: Cell subtype full name

celltype_final: Cell subtype short name             

sample_id  









rowData: Gene-level metadata



gene_ids

gene_names





Derived data - CyTOF

This is an R data set (.RDS) containing a SingleCellExperiment object with the following slots:



Assays:



counts_raw: signal intensity based on CyTOF dual counts

exprs_raw: arcsinh transformed raw counts (cofactor 5)

counts: batch corrected raw counts (linear scaling based on a quantile)

exprs: arcsin transformed counts (cofactor 5)

scaled: 0-1 normalized exprs (clipped to the 99.95th percentile)



colData (cell metadata)



bc_id: barcode of the sample during staining  

run: CyTOF experiment batch, named after the first sample of the batch

type: Sample type (blood or bone marrow)

sample_id: TuPro sample ID

pred_id: Predicted cell type [char]

pred_n: Predicted cell type [integer]



rowData (marker metadata)



channel_name: Name and isotopic mass of the metal ion corresponding to this marker

marker_name: Protein name

channel_group, channel_group_integer: Biological processes the channel identifies, e.g. specific cell type, signalling, cell death

tsne_channel: Logical - use this channel for dimensionality reduction?

channel_order: Define the order of channels for plotting

cluster_channel: Logical - use this channel for clustering?
DOI: 10.5281/zenodo.14447192
title: Diverge-Gemini POS-tagged Corpus of Modern Tibetan

description: Diverge-Gemini POS-tagged Corpus of Modern Tibetan is a modern Tibetan text corpus compiled from a wide range of sources of modern Tibetan, including Tibetan language books and newspapers from the 1950s, 1960s as well as 2000s, published in the Republic of India and the People's Republic of China of automatically Part-of-Speech (POS)-tagged with Google's Gemini Pro 1.5 model via the Google Cloud API using UD tags. Tagging was done using the Divergent Discourses Gemini Pro 1.5 POS-tagger.

To avoid arbitrary tokenization the raw data was tokenised with the Modern_Botok dialect pack for Botok v3.13 before Gemini-POS-tagging. The files are in CONLLU format.

Diverge-Gemini POS-tagged Modern Tibetan Corpus.zip contains the raw files as returned from Gemini Pro 1.5

Diverge-Gemini POS-tagged Modern Tibetan Corpus Normalised.zip contains a set of cleaned-up and normalised files. 

 

The following sources were used:

(I) Books: 



Ma hphung 馬烽. 1954. Gnyen bsgrigs kyi lo rgyus. Pe cin: Mi rigs dpe skrun khang (50kb).

Hri hphun 石峯. 1955. Krung go'i mi dmangs rang 'thad dmag gi dmag mi phal ba zhig gi lo rgyus: Mtsho sngon mi dmangs dpe skrun khang (95kb).

Le'u hro'o chi 劉少奇. 1950. Le'u hro'o chi'i lnga gcig gtams bshad. Pe cin: Krung dbyang mi dmangs srid gzhung mi rigs don byed u yon lhan khang (93kb).

Lin khru'u 林初. 1955. Deng dus kyi the wan. Pe cin: Mi rigs dpe skrun khang (131kb).    

Ma'o tse tung 毛澤東. 1952. Dmangs gtso'i ring lugs gsar pa'i bstan bcos. Pe cing: Krung dbyang mi dmangs srid gzhung mi rigs don byed u yon lhan khang (383kb).

Hu yun 胡芸. 1957. Mes rgyal gyi yul ljongs. pe cin: Mi rigs dpe skrun khang (162kb).

Nyi zla skar gsum. 1955. Pe cin: Mi rigs dpe skrun khang (45kb).


(II) Newspapers:

(1) transcribed by Divergent Discourses



bod mi'i rang dbang (India, 13 issues of 1965, 666kb)

dar mdo'i gsar 'gyur (PRC, ten issues from 1954-55, 1MB)

dkar mdzes nyin re'i gsar 'gyur (PRC, 10 issues from 1959, 672kb)

gsar 'gyur mdor bsdus (PRC, 16 issues from the years 1953-1954, 895kb)

kan lho'i gsar 'gyur (PRC, 12 issues from 195, 517kb9)

min ciang gsar 'gyur (PRC, nine issues from 1953-59, 783kb)

mtsho sngon bod yig gsar 'gyur (PRC, 14 issues from the years 1951-1965, 1,2MB)

Rang dbang gsar shog (India,  seven issues from 1961-1965, 594kb)

Rang dbang srung skyob gsar shog (India, five issues from 1963-65, 226kb)

yul phyogs so so'i gsr 'gyur me long (India, 12 issues from the years 1950-63, 938kb)


(2) scraped from the internet:

(2.1) Esukhia Tibetan news corpus from India):



Bangchen (12,542 articles, 121MB)

BOD Asia (161MB)

Gyalwa Rinpoche (575 articles, 9,4MB)

Radio Free Asia (26,890 articles, 117MB)

Tibet Times (18,090 articles, 218MB)

Voice of America (VOA) Tibetan (1,100 articles, 13MB)

Voice of Tibet (VOT) (7,452 articles, 68MB)


(2.2) from the PRC:



bod ljongs nyin re'i tshags par (4,155 articles, 162MB)


The corpus was tagged for the Divergent Discourses project led by Franz Xaver Erhard (Leipzig University and Robert Barnett (SOAS, London)
DOI: 10.5281/zenodo.14447191
title: Diverge-Gemini POS-tagged Corpus of Modern Tibetan

description: Diverge-Gemini POS-tagged Corpus of Modern Tibetan is a modern Tibetan text corpus compiled from a wide range of sources of modern Tibetan, including Tibetan language books and newspapers from the 1950s, 1960s as well as 2000s, published in the Republic of India and the People's Republic of China of automatically Part-of-Speech (POS)-tagged with Google's Gemini Pro 1.5 model via the Google Cloud API using UD tags. Tagging was done using the Divergent Discourses Gemini Pro 1.5 POS-tagger.

To avoid arbitrary tokenization the raw data was tokenised with the Modern_Botok dialect pack for Botok v3.13 before Gemini-POS-tagging. The files are in CONLLU format.

Diverge-Gemini POS-tagged Modern Tibetan Corpus.zip contains the raw files as returned from Gemini Pro 1.5

Diverge-Gemini POS-tagged Modern Tibetan Corpus Normalised.zip contains a set of cleaned-up and normalised files. 

 

The following sources were used:

(I) Books: 



Ma hphung 馬烽. 1954. Gnyen bsgrigs kyi lo rgyus. Pe cin: Mi rigs dpe skrun khang (50kb).

Hri hphun 石峯. 1955. Krung go'i mi dmangs rang 'thad dmag gi dmag mi phal ba zhig gi lo rgyus: Mtsho sngon mi dmangs dpe skrun khang (95kb).

Le'u hro'o chi 劉少奇. 1950. Le'u hro'o chi'i lnga gcig gtams bshad. Pe cin: Krung dbyang mi dmangs srid gzhung mi rigs don byed u yon lhan khang (93kb).

Lin khru'u 林初. 1955. Deng dus kyi the wan. Pe cin: Mi rigs dpe skrun khang (131kb).    

Ma'o tse tung 毛澤東. 1952. Dmangs gtso'i ring lugs gsar pa'i bstan bcos. Pe cing: Krung dbyang mi dmangs srid gzhung mi rigs don byed u yon lhan khang (383kb).

Hu yun 胡芸. 1957. Mes rgyal gyi yul ljongs. pe cin: Mi rigs dpe skrun khang (162kb).

Nyi zla skar gsum. 1955. Pe cin: Mi rigs dpe skrun khang (45kb).


(II) Newspapers:

(1) transcribed by Divergent Discourses



bod mi'i rang dbang (India, 13 issues of 1965, 666kb)

dar mdo'i gsar 'gyur (PRC, ten issues from 1954-55, 1MB)

dkar mdzes nyin re'i gsar 'gyur (PRC, 10 issues from 1959, 672kb)

gsar 'gyur mdor bsdus (PRC, 16 issues from the years 1953-1954, 895kb)

kan lho'i gsar 'gyur (PRC, 12 issues from 195, 517kb9)

min ciang gsar 'gyur (PRC, nine issues from 1953-59, 783kb)

mtsho sngon bod yig gsar 'gyur (PRC, 14 issues from the years 1951-1965, 1,2MB)

Rang dbang gsar shog (India,  seven issues from 1961-1965, 594kb)

Rang dbang srung skyob gsar shog (India, five issues from 1963-65, 226kb)

yul phyogs so so'i gsr 'gyur me long (India, 12 issues from the years 1950-63, 938kb)


(2) scraped from the internet:

(2.1) Esukhia Tibetan news corpus from India):



Bangchen (12,542 articles, 121MB)

BOD Asia (161MB)

Gyalwa Rinpoche (575 articles, 9,4MB)

Radio Free Asia (26,890 articles, 117MB)

Tibet Times (18,090 articles, 218MB)

Voice of America (VOA) Tibetan (1,100 articles, 13MB)

Voice of Tibet (VOT) (7,452 articles, 68MB)


(2.2) from the PRC:



bod ljongs nyin re'i tshags par (4,155 articles, 162MB)


The corpus was tagged for the Divergent Discourses project led by Franz Xaver Erhard (Leipzig University and Robert Barnett (SOAS, London)
DOI: 10.15468/dl.uwe5g5
title: Occurrence Download

description: A dataset containing 1014 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Centromadia pungens (Hook. & Arn.) Greene)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Country is United States of America",
 "StateProvince is California"
 ]
}

 The dataset includes 1014 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005250-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.45rd3b
title: Occurrence Download

description: A dataset containing 26047 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Ulmus laevis Pall.)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1945"
 ]
}

 The dataset includes 26047 records from 476 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005251-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3f9e8p
title: Occurrence Download

description: A dataset containing 2209 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Thunbergia alata Bojer ex Sims"
 ]
}

 The dataset includes 2209 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005254-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g5sxj3
title: Occurrence Download

description: A dataset containing 153 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Layia pentachaeta subsp. albida D.D.Keck)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Country is United States of America",
 "StateProvince is California"
 ]
}

 The dataset includes 153 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005255-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vukwa2
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-2.8 53.4,-2.7 53.4,-2.7 53.5,-2.8 53.5,-2.8 53.4))",
 "HasCoordinate is true",
 "TaxonKey is Pipistrellus pipistrellus (Schreber, 1774)",
 "Year 2013-2015"
 ]
}

 The dataset's 1 records were derived from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005239-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9vh6b3
title: Occurrence Download

description: A dataset containing 18903 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sitona lineatus (Linnaeus, 1758)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 18903 records from 334 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005253-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yveqy2
title: Occurrence Download

description: A dataset containing 351 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dalbergia tabascana Pittier"
 ]
}

 The dataset includes 351 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005256-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.absyc3
title: Occurrence Download

description: A dataset containing 33466301 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((105 3,129 3,129 42,105 42,105 3))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Year 1995-2025"
 ]
}

 The dataset includes 33466301 records from 2965 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005220-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13145/bacdive14524.20241212.9.2
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive14524.20251217.10
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive14525.20241212.9.2
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0082177.10fu
title: SH0082177.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh0082178.10fu
title: SH0082178.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive14525.20251217.10
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive14526.20241212.9.2
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive14526.20251217.10
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0082179.10fu
title: SH0082179.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive14527.20250331.9.3
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive14527.20251217.10
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0082180.10fu
title: SH0082180.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive14528.20241212.9.2
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0082181.10fu
title: SH0082181.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive14528.20251217.10
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive14529.20250331.9.3
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0082182.10fu
title: SH0082182.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.13145/bacdive14529.20251217.10
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive14530.20241212.9.2
title: Staphylococcus epidermidis (Winslow and Winslow 1908) Evans 1916

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.