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MeasurementSet
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IGVFDS0549PHUZ
IGVFDS0549PHUZ
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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 (male, 70 years) substantia nigra tissue associated with Alzheimer disease, Parkinson's disease; Homo sapiens (male, 70 years) posterior cingulate gyrus tissue associated with Parkinson's disease, mild cognitive impairment; ... and 10 more samples
Protocols
https://www.protocols.io/view/chromium-next-gem-single-cell-multiome-atac-gene-e-d5k784zn
Aliases
igvf:corces_measurementSet_RP004_G2_ATAC
Sequencing Results (Illumina)
16 items
1
2
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
IGVFFI0364JCHH
fastq
reads
R2
1
Barcode index
Illumina NovaSeq X
223JL2LT3
2
1.5 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI0491NBZA
fastq
reads
I1
1
Illumina NovaSeq X
223JL2LT3
3
637 MB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI1395UCEL
fastq
reads
I1
1
Illumina NovaSeq X
223JL2LT3
1
627 MB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI1673KOUC
fastq
reads
R3
1
Read 2
Illumina NovaSeq X
223JL2LT3
4
2.6 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI1863JCPK
fastq
reads
R1
1
Read 1
Illumina NovaSeq X
223JL2LT3
4
2.6 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI2104UTBS
fastq
reads
R1
1
Read 1
Illumina NovaSeq X
223JL2LT3
1
2.5 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI2490BCXB
fastq
reads
R2
1
Barcode index
Illumina NovaSeq X
223JL2LT3
4
1.4 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI3281AJMQ
fastq
reads
R2
1
Barcode index
Illumina NovaSeq X
223JL2LT3
3
1.4 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI4424FTWN
fastq
reads
R2
1
Barcode index
Illumina NovaSeq X
223JL2LT3
1
1.4 GB
Ryan Corces, Gladstone Institute UCSF
validated
IGVFFI4927WNYP
fastq
reads
R3
1
Read 2
Illumina NovaSeq X
223JL2LT3
1
2.5 GB
Ryan Corces, Gladstone Institute UCSF
validated
Samples
1 item
Accession
Type
Sample Terms
Disease Terms
Associated Construct Library Sets
Summary
IGVFSM9557IMSU
MultiplexedSample
cerebellar cortex
,
middle temporal gyrus
,
posterior cingulate gyrus
,
putamen
,
substantia nigra
Alzheimer disease
,
cerebral amyloid angiopathy
,
mild cognitive impairment
,
Parkinson's disease
multiplexed sample: Homo sapiens (male, 70 years) substantia nigra tissue associated with Alzheimer disease, Parkinson's disease; Homo sapiens (male, 70 years) posterior cingulate gyrus tissue associated with Parkinson's disease, mild cognitive impairment; ... and 10 more samples
Donors
12 items
1
2
Accession
Aliases
Sex
Taxa
IGVFDO0966KXTA
igvf:corces_donor_BANN0138
female
Homo sapiens
IGVFDO1469WVVS
igvf:corces_donor_BANN1063
male
Homo sapiens
IGVFDO2028IGVN
igvf:corces_donor_BANN1256
female
Homo sapiens
IGVFDO2801HZMZ
igvf:corces_donor_BANN1028
male
Homo sapiens
IGVFDO3911JQLE
igvf:corces_donor_BANN1412
male
Homo sapiens
IGVFDO3971UIZC
igvf:corces_donor_BANN0217
female
Homo sapiens
IGVFDO4191KJBR
igvf:corces_donor_BANN0129
male
Homo sapiens
IGVFDO6513APBX
igvf:corces_donor_BANN0210
male
Homo sapiens
IGVFDO6837RJUQ
igvf:corces_donor_BANN1201
male
Homo sapiens
IGVFDO8344LUQZ
igvf:corces_donor_BANN0621
male
Homo sapiens
Related Multiome Datasets
1 item
Accession
Type
Summary
Aliases
Lab
IGVFDS9604EHJY
MeasurementSet
single-nucleus RNA sequencing assay (10x multiome)
igvf:corces_measurementSet_RP004_G2_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