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IGVFDS4963SRAJ

released
Aliases
ansuman-satpathy:igvf18_analysis_set
File Set Type
intermediate analysis
Summary
10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix
Description
Quality-control workflow performed by Satpathy Lab - IMR90, MCF7, HCT116, SK-N-SH, HUDEP2 erythroid differentiation, teloHAEC +/- yoda1
Workflows
Samples
SK-N-SH, IMR-90, TeloHAEC, HCT116, HUDEP-2, MCF-7 cell line and differentiated cell specimen and multiplexed sample, perturbed with treatment(s)
Protocols

Files

20 items
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
1.6 MB
validation exempted
tbi
index
index of IGVFFI7984FWDE
Ansuman Satpathy, Stanford
1.7 MB
validated
tsv
fragments
fragments
Ansuman Satpathy, Stanford
5.0 GB
validation exempted
tbi
index
index of IGVFFI6686KVZP
Ansuman Satpathy, Stanford
1.6 MB
validated
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
1.4 MB
validation exempted
hdf5
raw feature barcode matrix
cell by gene in raw feature barcode matrix
Ansuman Satpathy, Stanford
156 MB
validated
tsv
cell hashing barcodes
cell hashing barcodes
Ansuman Satpathy, Stanford
600 KB
validated
tbi
index
index of IGVFFI9270QNIN
Ansuman Satpathy, Stanford
1.8 MB
validated
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
1.7 MB
validation exempted
hdf5
raw feature barcode matrix
cell by gene in raw feature barcode matrix
Ansuman Satpathy, Stanford
171 MB
validated

File Association Graph

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File Set
File
AnalysisSet
AuxiliarySet
MeasurementSet

Samples

4 items
Sample Terms
Disease Terms
Associated Construct Library Sets
Summary
MultiplexedSample
multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples
MultiplexedSample
multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples
MultiplexedSample
multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples
MultiplexedSample
multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... 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

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

AuxiliarySet Input File Sets

4 items
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: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples
lipid-conjugated oligo sequencing for single-nucleus RNA sequencing assay (10x multiome with MULTI-seq), single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples
lipid-conjugated oligo sequencing for single-nucleus RNA sequencing assay (10x multiome with MULTI-seq), single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples
lipid-conjugated oligo sequencing for single-nucleus RNA sequencing assay (10x multiome with MULTI-seq), single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: IMR-90 cell line, female, Homo sapiens; MCF-7 cell line, female, Homo sapiens; ... and 17 more samples

Attribution

Award
HG011972
Principal Investigator(s)
Contact P.I.
Jesse Engreitz
Lab
Ansuman Satpathy, Stanford