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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
677
ChIP-seq
180
ATAC-seq
170
total RNA-seq
102
single cell RNA-seq
33
DNase-seq
10
Hi-C
10
RRBS
7
pCHi-C
6
MeRIP-seq
5
STARR-seq
2
Capture-C
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
FAIRE-seq
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
677
DNA binding
274
Transcription
214
DNA accessibility
12
DNA methylation
10
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
189
histone
189
histone modification
118
control
97
broad histone mark
92
narrow histone mark
89
recombinant protein
75
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
324
November, 2017
103
May, 2020
99
February, 2021
75
May, 2021
73
September, 2018
64
October, 2019
62
November, 2018
59
August, 2017
55
June, 2019
48
August, 2021
48
July, 2018
43
April, 2018
31
July, 2019
28
December, 2018
23
January, 2019
16
November, 2019
13
February, 2023
12
November, 2020
9
March, 2020
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
2
October, 2018
1
January, 2018
1
October, 2022
Available data
1007
bam
941
bigWig
667
fastq
613
bed narrowPeak
464
bigBed narrowPeak
285
tsv
108
bed broadPeak
108
bigBed broadPeak
40
bed bed3+
36
tagAlign
11
bed bedMethyl
11
bigBed bedMethyl
5
hdf5
4
hic
4
tar
3
bedpe bed3+
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1208
Homo sapiens
Biosample type
2640
tissue
651
cell line
559
primary cell
394
in vitro differentiated cells
8
stem cell
Organ
415
liver
329
epithelium
282
pancreas
103
vasculature
97
blood vessel
79
heart
68
artery
61
blood
61
bodily fluid
55
kidney
38
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
mammary gland
1
pericardium
Project
1210
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
971
hg19
805
GRCh38
Lab
1135
AMP-T2D consortium
35
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
137
inconsistent ontology term
1
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
BIOSAMPLE
ASSAY
1210 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
single cell RNA-seq
DNase-seq
Hi-C
RRBS
pCHi-C
MeRIP-seq
STARR-seq
Capture-C
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
1
14
2
2
2
1
1
EndoC_BH1
13
19
31
1
6
2
1
smooth muscle cell of the coronary artery
6
8
52
GM12878
60
1
Panc1
13
1
1
+ See 13 more…
primary cell
pancreatic beta cell
13
7
10
12
pancreatic alpha cell
13
6
10
12
CD8-positive, alpha-beta T cell
33
2
2
pancreatic ductal cell
13
4
4
10
pancreatic acinar cell
8
5
4
12
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