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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
125
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
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
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
125
DNA binding
115
Transcription
29
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
83
control
29
transcription factor
16
histone
16
histone modification
8
broad histone mark
8
narrow histone mark
8
recombinant protein
4
RNA binding protein
3
nucleotide modification
Date released
96
February, 2021
60
November, 2017
43
August, 2021
22
October, 2019
21
May, 2021
15
November, 2019
11
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
5
November, 2018
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
582
bam
522
bigWig
427
fastq
404
bed narrowPeak
bigBed narrowPeak
119
tsv
59
bed broadPeak
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
295
Homo sapiens
Biosample type
2205
tissue
971
primary cell
373
in vitro differentiated cells
299
cell line
10
stem cell
Organ
101
liver
84
pancreas
77
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
18
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
288
AMP
9
T1D
2
community
Genome assembly (visualization)
171
hg19
141
GRCh38
Lab
253
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
91
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
1
inconsistent assembly
files.file_type!
hic
bigBed broadPeak
bigBed narrowPeak
BIOSAMPLE
ASSAY
299 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
79
14
1
2
2
1
1
1
EndoC_BH1
15
33
19
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
Panc1
7
1
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