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IGVFDS3910GBDQ

released
File Set Type
experimental data
Summary
interference single-nucleus ATAC-seq (10x multiome with MULTI-seq)
Assay Term
single-nucleus ATAC-seq
Sample Summaries
  • multiplexed sample: Jurkat cell line, male, Homo sapiens treated with 100 ng/mL phorbol 13-acetate 12-myristate for 4 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 4 hours; K562 cell line, female, Homo sapiens modified with CRISPRi Sp-dCas9-KOX1-KRAB; ... and 8 more samples
Protocols
Aliases
ansuman-satpathy:snATAC-seq_igvf10_10x1

Sequencing Results (Illumina)

8 items
Read Names
fastq
reads
R1
1
Read 1
223JKJLT3
8
17 GB
Ansuman Satpathy, Stanford
validated
fastq
reads
I1
1
223JKJLT3
7
3.7 GB
Ansuman Satpathy, Stanford
validated
fastq
reads
R3
1
Read 2
223JKJLT3
7
17 GB
Ansuman Satpathy, Stanford
validated
fastq
reads
R3
1
Read 2
223JKJLT3
8
17 GB
Ansuman Satpathy, Stanford
validated
fastq
reads
R2
1
Barcode index
223JKJLT3
7
9.5 GB
Ansuman Satpathy, Stanford
validated
fastq
reads
R1
1
Read 1
223JKJLT3
7
17 GB
Ansuman Satpathy, Stanford
validated
fastq
reads
R2
1
Barcode index
223JKJLT3
8
9.2 GB
Ansuman Satpathy, Stanford
validated
fastq
reads
I1
1
223JKJLT3
8
3.5 GB
Ansuman Satpathy, Stanford
validated

Samples

1 item
Accession
Type
Sample Terms
Disease Terms
Associated Construct Library Sets
Summary
MultiplexedSample
multiplexed sample: Jurkat cell line, male, Homo sapiens treated with 100 ng/mL phorbol 13-acetate 12-myristate for 4 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 4 hours; K562 cell line, female, Homo sapiens modified with CRISPRi Sp-dCas9-KOX1-KRAB; ... and 8 more samples

Donors

4 items
Aliases
  • igvf:donor_of_Jurkat
male
Homo sapiens
  • igvf:donor_of_teloHAEC
female
Homo sapiens
  • igvf:donor_of_THP1
male
Homo sapiens
  • igvf:donor_of_K562
female
Homo sapiens

File Sets Using This Measurement Set as an Input

1 item
Accession
Type
Summary
Aliases
Lab
AnalysisSet
10x multiome with MULTI-seq: cell hashing barcodes, fragments, index, peaks, raw feature barcode matrix
  • ansuman-satpathy:igvf10_analysis_set
Ansuman Satpathy, Stanford

Related Multiome Datasets

1 item
Accession
Type
Summary
Aliases
Lab
MeasurementSet
interference single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
  • ansuman-satpathy:snRNA-seq_igvf10_10x1
Ansuman Satpathy, Stanford

Auxiliary Datasets

1 item
Accession
Type
Summary
Files
Aliases
Lab
AuxiliarySet
lipid-conjugated oligo sequencing for interference single-nucleus ATAC-seq (10x multiome with MULTI-seq), interference single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
  • ansuman-satpathy:multiseq_igvf10_10x1
Ansuman Satpathy, Stanford

Attribution

Award
HG012076
Principal Investigator(s)
Contact P.I.
Ansuman Satpathy
Lab
Ansuman Satpathy, Stanford