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INDEXED
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MeasurementSet
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IGVFDS5157MMQX
IGVFDS5157MMQX
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This object is in preview status. Metadata is subject to change until this object is released.
File Set Type
experimental data
Summary
single-nucleus ATAC-seq (10x multiome)
Assay Term
single-nucleus ATAC-seq
Sample Summaries
multiplexed sample: Homo sapiens (female, 86 years) putamen tissue associated with Parkinson's disease; Homo sapiens (female, 70 years) middle temporal gyrus tissue associated with Parkinson's disease; ... and 8 more samples
Protocols
https://www.protocols.io/view/chromium-next-gem-single-cell-multiome-atac-gene-e-d5k784zn
Aliases
igvf:corces_measurementSet_X054_G3_ATAC
Sequencing Results (Illumina)
8 items
Accession
File Format
Content Type
Illumina Read Type
Sequencing Run
Read Names
Associated seqspec Files
Sequencing Platform
Flowcell ID
Lane
Index
File Size
Lab
Upload Status
IGVFFI0667DQSK
fastq
reads
R2
1
Barcode index
Illumina NovaSeq X
19RTCA4LE
6
3.2 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI1000NIJC
fastq
reads
R2
1
Barcode index
Illumina NovaSeq X
19RTCA4LE
7
3.2 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI1731RNWY
fastq
reads
I1
1
Illumina NovaSeq X
19RTCA4LE
6
1.4 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI4342UKBC
fastq
reads
I1
1
Illumina NovaSeq X
19RTCA4LE
7
1.4 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI4482SEWW
fastq
reads
R3
1
Read 2
Illumina NovaSeq X
19RTCA4LE
6
12 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI5179OBZT
fastq
reads
R1
1
Read 1
Illumina NovaSeq X
19RTCA4LE
6
13 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI6414DSBV
fastq
reads
R1
1
Read 1
Illumina NovaSeq X
19RTCA4LE
7
13 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI9990OBQA
fastq
reads
R3
1
Read 2
Illumina NovaSeq X
19RTCA4LE
7
12 GB
Ryan Corces, Gladstone Institute UCSF
validated
Samples
1 item
Accession
Type
Sample Terms
Disease Terms
Associated Construct Library Sets
Summary
IGVFSM2747EUIZ
MultiplexedSample
cerebellar cortex
,
middle temporal gyrus
,
posterior cingulate gyrus
,
putamen
cerebral amyloid angiopathy
,
mild cognitive impairment
,
Parkinson's disease
multiplexed sample: Homo sapiens (female, 86 years) putamen tissue associated with Parkinson's disease; Homo sapiens (female, 70 years) middle temporal gyrus tissue associated with Parkinson's disease; ... and 8 more samples
Donors
10 items
Accession
Aliases
Sex
Taxa
IGVFDO1464XWYC
igvf:corces_donor_BANN1809
male
Homo sapiens
IGVFDO2028IGVN
igvf:corces_donor_BANN1256
female
Homo sapiens
IGVFDO2559GIIZ
igvf:corces_donor_BANN2103
male
Homo sapiens
IGVFDO3471KCPD
igvf:corces_donor_BANN1647
male
Homo sapiens
IGVFDO4273OHGB
igvf:corces_donor_BANN0322
female
Homo sapiens
IGVFDO4825ZGIS
igvf:corces_donor_BANN2057
male
Homo sapiens
IGVFDO5205IAEO
igvf:corces_donor_BANN1632
male
Homo sapiens
IGVFDO7227BIXW
igvf:corces_donor_BANN1614
male
Homo sapiens
IGVFDO8800RKVB
igvf:corces_donor_BANN1872
female
Homo sapiens
IGVFDO9247BEUS
igvf:corces_donor_BANN2149
male
Homo sapiens
Related Multiome Datasets
1 item
Accession
Type
Summary
Aliases
Lab
IGVFDS4233IEWY
MeasurementSet
single-nucleus RNA sequencing assay (10x multiome)
igvf:corces_measurementSet_X054_G3_RNA
Ryan Corces, Gladstone Institute UCSF
Attribution
Award
HG012076
Principal Investigator(s)
Ansuman Satpathy
Contact P.I.
Ansuman Satpathy
Lab
Ryan Corces, Gladstone Institute UCSF