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IGVFDS4963SRAJ

released
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Aliases
ansuman-satpathy:igvf18_analysis_set
ansuman-satpathy:igvf18_analysis_set_10x1
File Set Type
intermediate analysis
Summary
single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
Description
Quality-control workflow performed by Satpathy Lab - IMR90, MCF7, HCT116, SK-N-SH, HUDEP2 erythroid differentiation, teloHAEC +/- yoda1
Workflows
Samples
Homo sapiens multiplexed sample of HCT116, HUDEP-2, IMR-90, MCF-7, SK-N-SH, TeloHAEC, perturbed with 3 μM Yoda1 for 4 hours
Protocols
Attribution
Ansuman Satpathy, Stanford

Files

5 items
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
1.6 MB
validation exempted
tbi
index
index of IGVFFI6686KVZP
Ansuman Satpathy, Stanford
1.6 MB
validated
tsv
fragments
fragments
Ansuman Satpathy, Stanford
4.9 GB
validation exempted
tsv
cell hashing barcodes
cell hashing barcodes
Ansuman Satpathy, Stanford
747 KB
validated
hdf5
raw feature barcode matrix
cell by gene in raw feature barcode matrix
Ansuman Satpathy, Stanford
185 MB
validated

File Association Graph

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File Set
File
AnalysisSet
AuxiliarySet
MeasurementSet

Samples

1 item
Accession
Type
Sample Terms
Disease Terms
Associated Construct Library Sets
Summary
MultiplexedSample
multiplexed sample: Homo sapiens (female) IMR-90 cell line; Homo sapiens (female) MCF-7 cell line; ... and 17 more samples

Donors

6 items
Aliases
  • igvf:donor_of_HCT116
male
Homo sapiens
  • igvf:donor_of_HUDEP-2
unspecified
Homo sapiens
  • igvf:donor_of_teloHAEC
female
Homo sapiens
  • igvf:donor_of_IMR90
female
Homo sapiens
  • igvf:donor_of_MCF7
female
Homo sapiens
  • igvf:donor_of_SKNSH
female
Homo sapiens

MeasurementSet Input File Sets

2 items
Associated Auxiliary Sets
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: Homo sapiens (female) IMR-90 cell line; Homo sapiens (female) MCF-7 cell line; ... and 17 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: Homo sapiens (female) IMR-90 cell line; Homo sapiens (female) MCF-7 cell line; ... and 17 more samples

AuxiliarySet Input File Sets

1 item
Auxiliary Sets
Measured Samples
Associated Measurement Sets
lipid-conjugated oligo sequencing for single-nucleus ATAC-seq (10x multiome with MULTI-seq), single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: Homo sapiens (female) IMR-90 cell line; Homo sapiens (female) MCF-7 cell line; ... and 17 more samples