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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
132
ATAC-seq
104
total RNA-seq
103
ChIP-seq
86
single cell RNA-seq
56
snATAC-seq
47
WGBS
21
pCHi-C
9
DNase-seq
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
197
DNA accessibility
192
Transcription
103
DNA binding
48
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
92
control
8
histone
8
histone modification
6
transcription factor
5
broad histone mark
3
RNA binding protein
3
narrow histone mark
3
nucleotide modification
1
recombinant protein
Date released
134
May, 2022
94
February, 2023
59
September, 2020
58
May, 2020
49
November, 2017
48
February, 2021
38
May, 2021
22
August, 2021
18
October, 2019
15
June, 2019
12
August, 2017
8
January, 2021
November, 2018
7
August, 2020
6
November, 2020
4
March, 2020
3
January, 2019
3
March, 2023
2
November, 2019
1
December, 2018
1
May, 2019
1
October, 2022
1
September, 2018
Available data
235
fastq
153
zippedFastqFolder
101
bam
32
tsv
19
bigWig
9
bed narrowPeak
9
bigBed narrowPeak
7
bed bed3+
7
bed broadPeak
7
bigBed broadPeak
4
tagAlign
1
csv
1
hic
1
txt
1
vcf
Organism
580
Homo sapiens
Biosample type
1013
tissue
459
primary cell
125
cell line
97
in vitro differentiated cells
7
stem cell
Organ
206
epithelium
195
pancreas
68
liver
18
kidney
11
blood
11
bodily fluid
8
blood vessel
8
vasculature
5
connective tissue
5
heart
5
vein
2
artery
2
musculature of body
1
bone element
1
bone marrow
1
eye
1
mammary gland
Project
321
HPAP
231
AMP
29
T1D
2
community
1
ITG
Genome assembly (visualization)
hg19
940
GRCh38
Lab
321
Klaus Kaestner, Upenn
206
AMP-T2D consortium
29
Kyle Gaulton, UCSD
19
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
44
inconsistent ontology term
27
audit script error
assembly!
hg19
month_released!
June, 2018
November, 2018
BIOSAMPLE
ASSAY
584 results
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Clear Filters
ATAC-seq
total RNA-seq
ChIP-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
DNase-seq
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNAme array
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
Langerhans cell
85
48
pancreatic alpha cell
29
42
6
31
pancreatic beta cell
16
11
6
16
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
1
2
1
+ See 37 more…
cell line
HepG2
9
53
1
2
1
1
EndoC_BH1
16
2
6
3
2
2
1
Panc1
7
GM12878
3
EndoC-BH1
1
1
+ See 11 more…
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