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IGVFDS0398ALPE

released
Aliases
ansuman-satpathy:igvf17_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 - RUES2 gastruloid differentiation
Workflows
Samples
RUES2 differentiated cell specimen and multiplexed sample
Protocols

Files

25 items
hdf5
raw feature barcode matrix
cell by gene in raw feature barcode matrix
Ansuman Satpathy, Stanford
166 MB
validated
tsv
cell hashing barcodes
cell hashing barcodes
Ansuman Satpathy, Stanford
622 KB
validated
bed
peaks
GRCh38 peaks
Ansuman Satpathy, Stanford
3.1 MB
validation exempted
tsv
cell hashing barcodes
cell hashing barcodes
Ansuman Satpathy, Stanford
639 KB
validated
tsv
fragments
fragments
Ansuman Satpathy, Stanford
4.8 GB
validation exempted
tsv
cell hashing barcodes
cell hashing barcodes
Ansuman Satpathy, Stanford
624 KB
validated
hdf5
raw feature barcode matrix
cell by gene in raw feature barcode matrix
Ansuman Satpathy, Stanford
159 MB
validated
tbi
index
index of IGVFFI7963IGJM
Ansuman Satpathy, Stanford
1.8 MB
validated
tbi
index
index of IGVFFI8360SRWO
Ansuman Satpathy, Stanford
1.7 MB
validated
tbi
index
index of IGVFFI4651ZHFR
Ansuman Satpathy, Stanford
1.8 MB
validated

File Association Graph

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File Set
File
AnalysisSet
AuxiliarySet
MeasurementSet

Samples

5 items
Sample Terms
Disease Terms
Associated Construct Library Sets
Summary
MultiplexedSample
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
MultiplexedSample
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
MultiplexedSample
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
MultiplexedSample
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
MultiplexedSample
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples

Donors

1 item
Accession
Aliases
Sex
Taxa
  • igvf:donor_of_RUES2
  • igvf:donor_RUES2
female
Homo sapiens

MeasurementSet Input File Sets

10 items
Associated Auxiliary Sets
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus ATAC-seq (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
single-nucleus RNA sequencing assay (10x multiome with MULTI-seq)
multiplexed sample: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples

AuxiliarySet Input File Sets

5 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: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
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: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
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: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
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: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples
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: RUES2 differentiated cell specimen induced to gastrula for 2 days, female, Homo sapiens; RUES2 differentiated cell specimen induced to gastrula for 1 day, female, Homo sapiens; ... and 10 more samples

Attribution

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