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IGVFDS9170BNTS

released
Aliases
ansuman-satpathy:igvf3_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 - WTC11 cardiomyocyte differentiation, H9 cardiomyocyte differentiation, HepG2 +/- serum
Workflows
Samples
H9, GM25256 (WTC-11), HepG2 cell line and differentiated cell specimen and multiplexed sample
Protocols

Files

20 items
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
2.0 MB
validation exempted
tbi
index
index of IGVFFI7589YNTD
Ansuman Satpathy, Stanford
1.3 MB
validated
tbi
index
index of IGVFFI5547HSOB
Ansuman Satpathy, Stanford
1.3 MB
validated
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
2.0 MB
validation exempted
tsv
cell hashing barcodes
cell hashing barcodes
Ansuman Satpathy, Stanford
305 KB
validated
tsv
fragments
fragments
Ansuman Satpathy, Stanford
2.6 GB
validation exempted
hdf5
raw feature barcode matrix
cell by gene in raw feature barcode matrix
Ansuman Satpathy, Stanford
93 MB
validated
tsv
cell hashing barcodes
cell hashing barcodes
Ansuman Satpathy, Stanford
314 KB
validated
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
1.9 MB
validation exempted
tsv
fragments
fragments
Ansuman Satpathy, Stanford
3.1 GB
validation exempted

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: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
MultiplexedSample
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
MultiplexedSample
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
MultiplexedSample
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples

Donors

3 items
Aliases
  • igvf:donor_of_WTC11
male
Homo sapiens
  • igvf:donor_of_H9
female
Homo sapiens
  • igvf:donor_of_HepG2
male
Homo sapiens

MeasurementSet Input File Sets

8 items
Associated Auxiliary Sets
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 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: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 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: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 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: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 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: H9 differentiated cell specimen induced to cardiac muscle cell for 15 days, female, Homo sapiens; HepG2 cell line, male, Homo sapiens grown in DMEM without serum; ... and 10 more samples

Attribution

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