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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
651
ChIP-seq
216
total RNA-seq
52
ATAC-seq
11
pCHi-C
6
Hi-C
5
STARR-seq
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
2
single cell RNA-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
651
DNA binding
220
Transcription
54
DNA accessibility
6
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
408
transcription factor
130
histone
130
histone modification
108
control
89
recombinant protein
75
RNA binding protein
65
broad histone mark
64
narrow histone mark
33
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
129
May, 2021
96
February, 2021
84
August, 2021
68
August, 2017
61
November, 2018
43
December, 2017
39
February, 2018
28
December, 2018
23
January, 2019
23
October, 2019
21
February, 2023
14
March, 2020
5
January, 2018
5
November, 2019
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
807
bam
723
bigWig
568
fastq
513
bed narrowPeak
365
bigBed narrowPeak
216
tsv
59
bed broadPeak
59
bigBed broadPeak
57
tagAlign
26
bed bed3+
8
bedpe bed3+
7
bed bedgraph
6
bed bed3
5
hic
4
txt
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
vcf
Organism
958
Homo sapiens
Biosample type
2267
tissue
742
primary cell
570
cell line
391
in vitro differentiated cells
10
stem cell
Organ
416
liver
103
epithelium
97
connective tissue
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
954
AMP
5
T1D
2
community
Genome assembly (visualization)
767
hg19
672
GRCh38
4
hg18
Lab
866
AMP-T2D consortium
52
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
2
Anna Gloyn, Oxford
Audit category:
131
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
43
inconsistent control read length
8
inconsistent control run_type
organ_slims!
ovary
pancreas
BIOSAMPLE
ASSAY
961 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
STARR-seq
GRO-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
single cell RNA-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
EndoC_BH1
3
2
+ See 13 more…
in vitro differentiated cells
adipocyte
67
5
8
1
1
cardiomyocytes
3
59
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 30 more…
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