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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
462
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
WGBS
1
whole genome sequencing assay
Assay category
462
DNA binding
113
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
358
transcription factor
89
recombinant protein
83
control
64
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
304
November, 2017
96
February, 2021
61
November, 2018
43
August, 2021
28
December, 2018
26
October, 2019
23
January, 2019
21
May, 2021
11
March, 2020
10
November, 2019
6
November, 2020
5
February, 2023
1
January, 2018
1
May, 2020
Available data
564
bam
504
bigWig
419
fastq
387
bed narrowPeak
345
bigBed narrowPeak
119
tsv
51
bed broadPeak
51
bigBed broadPeak
14
tagAlign
3
bed bed3+
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
636
Homo sapiens
Biosample type
2469
tissue
965
primary cell
636
cell line
338
in vitro differentiated cells
7
stem cell
Organ
389
liver
81
pancreas
72
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
627
AMP
9
T1D
Genome assembly (visualization)
509
hg19
448
GRCh38
Lab
592
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
86
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
20
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
tar
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
636 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
WGBS
whole genome sequencing assay
cell line
HepG2
366
14
1
2
2
2
1
1
EndoC_BH1
9
33
19
6
1
3
2
2
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
9
1
1
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