cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.57745/phbavp
title: L610000100_projection_datasheet.pdf

description: :unav
DOI: 10.57745/zudj7x
title: J171171001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/4tuebn
title: L031401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ednt8h
title: J522211001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/jslgas
title: Y201001001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/xmunsm
title: L130000200_projection_datasheet.pdf

description: :unav
DOI: 10.57745/bbi5qc
title: L574192002_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ftvlzb
title: Y062522001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/hylbu9
title: J704301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/qexxky
title: J422401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/vqrufh
title: Y346401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/3wj36f
title: J711401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/9ntrq7
title: J793301010_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ixazyd
title: Y203002001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/jkr7qc
title: L810211001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/zwxhnf
title: L211401300_projection_datasheet.pdf

description: :unav
DOI: 10.5281/zenodo.10280299
title: A Bag-Of-Motif Model Captures Cell States at Distal Regulatory Sequences

description: The BOM distal cis-regulatory elements (CREs) datasets

 

This is the set of distal CRE and mouse single cell ATAC-seq data used in the Bag-Of-Motif paper. Datasets from the references below were processed as described in the BOM paper. Code for the BOM model is found here (https://github.com/ewonglab/BOM_package).

 

Mouse E8.25 scATAC-seq (Pijuan-Sala, B. et al.)

mouseE8.25_scATAC_cellTypeSpecific_Pijuan_Sala.B_etal_mm10.bed

mouseE8.25_scATAC_cellTypeSpecific_Pijuan_Sala.B_etal_mm10.fa

 

mouseE8.25_scATAC_topics_Pijuan_Sala.B_etal_mm10.bed

mouseE8.25_scATAC_topics_Pijuan_Sala.B_etal_mm10.fa

 

Mouse E8.5 etc (Argelaguet, R. et al.)

mouseE8.5_scATAC_cellTypeSpecific_Argelaguet.R_etal_mm10.bed

mouseE8.5_scATAC_cellTypeSpecific_Argelaguet.R_etal_mm10.fa

 

Human cell lines (Roadmap Epigenomics Consortium et al.)

humanCellLineSpecific_chromHMM_hg19.bed

humanCellLineSpecific_chromHMM_hg19.fa

 

Human fetal (Domcke, S. et al.)

humanFetal_scATAC_cellTypeSpecific_Domcke.S_etal_hg19.bed    

humanFetal_scATAC_cellTypeSpecific_Domcke.S_etal_hg19.fa

 

Human blood and bone marrow (Granja, J. M. et al.)

humanHematopoiesis_scATAC_cellTypeSpecific_Granja_J.M_etal_hg19.bed

humanHematopoiesis_scATAC_cellTypeSpecific_Granja_J.M_etal_hg19.fa

 

Adult zebrafish (Yang, H. et al.)

zebrafishAdult_ATAC_cellTypeSpecific_Yang_H_etal_danRer10.bed

zebrafishAdult_ATAC_cellTypeSpecific_Yang_H_etal_danRer10.fa

 

Fruit fly (Zabidi, M. A. et al.)

flySTARRseq_dev_hkp_activity_Zabidi_M.A_etal_dm3.bed

flySTARRseq_dev_hkp_activity_Zabidi_M.A_etal_dm3.fa

 

Mouse adult heart single cell ATAC-seq

mouseadult_heart_atac_matrix.rds (single cell ATAC-seq counts)

mouseadult_heart_cell_annot.txt (cell type annotation for each cell in scATAC-seq matrix)

mouseadult_heart_peak_ids.txt (marker peaks)

 



Pijuan-Sala, B. et al. Single-cell chromatin accessibility maps reveal regulatory programs driving early mouse organogenesis. Nat. Cell Biol. 22, 487–497 (2020).

Argelaguet, R. et al. Decoding gene regulation in the mouse embryo using single-cell multi-omics. 2022.06.15.496239 Preprint at https://doi.org/10.1101/2022.06.15.496239 (2022).

Roadmap Epigenomics Consortium et al. Integrative analysis of 111 reference human epigenomes. Nature 518, 317–330 (2015).

Domcke, S. et al. A human cell atlas of fetal chromatin accessibility. Science 370, (2020).

Granja, J. M. et al. Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia. Nat. Biotechnol. 37, 1458–1465 (2019).

Yang, H. et al. A map of cis-regulatory elements and 3D genome structures in zebrafish. Nature 588, 337–343 (2020).

Zabidi, M. A. et al. Enhancer-core-promoter specificity separates developmental and housekeeping gene regulation. Nature 518, 556–559 (2015).
DOI: 10.57745/2v0g43
title: L233401200_projection_datasheet.pdf

description: :unav
DOI: 10.57745/5vqxjo
title: J341302001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/6kemp6
title: Y066404001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ga06aw
title: Y028406001_projection_datasheet.pdf

description: :unav
DOI: 10.5281/zenodo.15720256
title: A Bag-Of-Motif Model Captures Cell States at Distal Regulatory Sequences

description: The BOM distal cis-regulatory elements (CREs) datasets

 

This is the set of distal CRE and mouse single cell ATAC-seq data used in the Bag-Of-Motif paper. Datasets from the references below were processed as described in the BOM paper. Code for the BOM model is found here (https://github.com/ewonglab/BOM_package).

 

Mouse E8.25 scATAC-seq (Pijuan-Sala, B. et al.)

mouseE8.25_scATAC_cellTypeSpecific_Pijuan_Sala.B_etal_mm10.bed

mouseE8.25_scATAC_cellTypeSpecific_Pijuan_Sala.B_etal_mm10.fa

 

mouseE8.25_scATAC_topics_Pijuan_Sala.B_etal_mm10.bed

mouseE8.25_scATAC_topics_Pijuan_Sala.B_etal_mm10.fa

 

Mouse E8.5 etc (Argelaguet, R. et al.)

mouseE8.5_scATAC_cellTypeSpecific_Argelaguet.R_etal_mm10.bed

mouseE8.5_scATAC_cellTypeSpecific_Argelaguet.R_etal_mm10.fa

 

Human cell lines (Roadmap Epigenomics Consortium et al.)

humanCellLineSpecific_chromHMM_hg19.bed

humanCellLineSpecific_chromHMM_hg19.fa

 

Human fetal (Domcke, S. et al.)

humanFetal_scATAC_cellTypeSpecific_Domcke.S_etal_hg19.bed    

humanFetal_scATAC_cellTypeSpecific_Domcke.S_etal_hg19.fa

 

Human blood and bone marrow (Granja, J. M. et al.)

humanHematopoiesis_scATAC_cellTypeSpecific_Granja_J.M_etal_hg19.bed

humanHematopoiesis_scATAC_cellTypeSpecific_Granja_J.M_etal_hg19.fa

 

Adult zebrafish (Yang, H. et al.)

zebrafishAdult_ATAC_cellTypeSpecific_Yang_H_etal_danRer10.bed

zebrafishAdult_ATAC_cellTypeSpecific_Yang_H_etal_danRer10.fa

 

Fruit fly (Zabidi, M. A. et al.)

flySTARRseq_dev_hkp_activity_Zabidi_M.A_etal_dm3.bed

flySTARRseq_dev_hkp_activity_Zabidi_M.A_etal_dm3.fa

 

Mouse adult heart single cell ATAC-seq

mouseadult_heart_atac_matrix.rds (single cell ATAC-seq counts)

mouseadult_heart_cell_annot.txt (cell type annotation for each cell in scATAC-seq matrix)

mouseadult_heart_peak_ids.txt (marker peaks)

 



Pijuan-Sala, B. et al. Single-cell chromatin accessibility maps reveal regulatory programs driving early mouse organogenesis. Nat. Cell Biol. 22, 487–497 (2020).

Argelaguet, R. et al. Decoding gene regulation in the mouse embryo using single-cell multi-omics. 2022.06.15.496239 Preprint at https://doi.org/10.1101/2022.06.15.496239 (2022).

Roadmap Epigenomics Consortium et al. Integrative analysis of 111 reference human epigenomes. Nature 518, 317–330 (2015).

Domcke, S. et al. A human cell atlas of fetal chromatin accessibility. Science 370, (2020).

Granja, J. M. et al. Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia. Nat. Biotechnol. 37, 1458–1465 (2019).

Yang, H. et al. A map of cis-regulatory elements and 3D genome structures in zebrafish. Nature 588, 337–343 (2020).

Zabidi, M. A. et al. Enhancer-core-promoter specificity separates developmental and housekeeping gene regulation. Nature 518, 556–559 (2015).
DOI: 10.57745/1bkrrk
title: J814301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/e4vdnz
title: J480301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/gtpwke
title: L830030000_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ygdypx
title: L820301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/zevoog
title: Y042401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/bmcmfh
title: J473401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/frlrbx
title: L231301401_projection_datasheet.pdf

description: :unav
DOI: 10.57745/p2dgfy
title: Y620581301_projection_datasheet.pdf

description: :unav
DOI: 10.57745/cg5ns5
title: L240403001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/kzp53a
title: Y532501001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ljjdh7
title: J421191001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/uptk3v
title: Y902000101_projection_datasheet.pdf

description: :unav
DOI: 10.57745/wlvd9b
title: J844301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/x8fujm
title: L453000201_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ccs8gs
title: Y781000101_projection_datasheet.pdf

description: :unav
DOI: 10.57745/nk2u0c
title: L620201002_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ztv4l0
title: J541211001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/cyreo2
title: J481301001_projection_datasheet.pdf

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DOI: 10.57745/ev8dth
title: J462301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/fcmxrn
title: Y602000000_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ioqxpb
title: L551191001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/mnecxz
title: L911000601_projection_datasheet.pdf

description: :unav
DOI: 10.57745/vqkdbv
title: Y890000101_projection_datasheet.pdf

description: :unav
DOI: 10.57745/xryrgs
title: L631030000_projection_datasheet.pdf

description: :unav
DOI: 10.57745/zdrjw9
title: J382182001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/zqwhyr
title: Y530502001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/86fs8e
title: L870000000_projection_datasheet.pdf

description: :unav
DOI: 10.57745/c897qs
title: Y511502002_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ij1ilg
title: J734401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/lvm2rr
title: J521211001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/oqupnn
title: Y901000301_projection_datasheet.pdf

description: :unav
DOI: 10.57745/qe1q2s
title: L251000300_projection_datasheet.pdf

description: :unav
DOI: 10.57745/enoabu
title: L563030000_projection_datasheet.pdf

description: :unav
DOI: 10.57745/gzpbug
title: Y132501001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/nzzuc9
title: L503401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/pr9m3m
title: J783301020_projection_datasheet.pdf

description: :unav
DOI: 10.57745/zgm0ni
title: J735301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/hkm3ni
title: Y110501001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/jjv3ti
title: J373301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/m8dzgc
title: L001061101_projection_datasheet.pdf

description: :unav
DOI: 10.57745/qgxzmh
title: Y024401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/7c6vyp
title: L011030000_projection_datasheet.pdf

description: :unav
DOI: 10.57745/lji34a
title: L303301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/myvfeu
title: Y503201001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/o9iecg
title: Y611501001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ogcpvv
title: J750061001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/rjgeyh
title: J110301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/6fe5n8
title: J543211001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/lkixcp
title: L452302002_projection_datasheet.pdf

description: :unav
DOI: 10.57745/skxyyr
title: Y553403001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/d1styc
title: J790061002_projection_datasheet.pdf

description: :unav
DOI: 10.57745/jgjcfs
title: Y510501001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/ni7ivh
title: L091402001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/q64km3
title: J203401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/x0akey
title: L320062001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/zyc7ke
title: Y612501201_projection_datasheet.pdf

description: :unav
DOI: 10.57745/66ttxb
title: L611000100_projection_datasheet.pdf

description: :unav
DOI: 10.57745/79uexw
title: J461401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/awfhnu
title: Y421401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/m7l0ks
title: Y135521001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/rkexr3
title: L131000400_projection_datasheet.pdf

description: :unav
DOI: 10.57745/wepbje
title: Y257001001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/xj6a1w
title: J702402001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/yoij5p
title: J763301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/5sy10g
title: L140061001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/fizk1v
title: Y136401001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/keamui
title: J731301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/riqfoq
title: L510181001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/xsw6pm
title: J131301001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/8usoin
title: J152302001_projection_datasheet.pdf

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DOI: 10.57745/hs1zpp
title: Y046402001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/lu7hw7
title: L571000200_projection_datasheet.pdf

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DOI: 10.57745/uhafjb
title: Y101202101_projection_datasheet.pdf

description: :unav
DOI: 10.57745/21luv1
title: Y237001001_projection_datasheet.pdf

description: :unav
DOI: 10.57745/bqqyo5
title: L510018000_projection_datasheet.pdf

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DOI: 10.57745/gck5cc
title: L522302001_projection_datasheet.pdf

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DOI: 10.57745/m2vq4h
title: J120541001_projection_datasheet.pdf

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DOI: 10.57745/b1ervj
title: J012151001_projection_datasheet.pdf
DOI: 10.57745/efei8g
title: J001401001_projection_datasheet.pdf
DOI: 10.57745/fdyz3v
title: L800001020_projection_datasheet.pdf

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DOI: 10.57745/nqv295
title: L710030000_projection_datasheet.pdf

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DOI: 10.57745/xqsnfj
title: Y503202001_projection_datasheet.pdf

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title: Y201002001_projection_datasheet.pdf

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title: J014401001_projection_datasheet.pdf
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DOI: 10.57745/hglw2y
title: Y624000101_projection_datasheet.pdf

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DOI: 10.57745/2omo1m
title: J061161001_projection_datasheet.pdf
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title: Y812000101_projection_datasheet.pdf

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title: J062661001_projection_datasheet.pdf
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DOI: 10.15468/dl.3pr77n
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cylindrocystis brebissonii (Menegh. ex Ralfs) de Bary",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((30.0251 -31.3959,30.5701 -30.7329,30.5701 -28.5786,25.5395 -28.5786,25.5395 -32.9007,28.2048 -32.9007,28.5753 -32.6569,29.4902 -31.7517,30.0251 -31.3959))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0064820-250525065834625/datasets/export for details.
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