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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
114
ChIP-seq
109
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-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
114
DNA binding
111
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
74
control
26
transcription factor
17
histone
17
histone modification
9
narrow histone mark
8
broad histone mark
4
RNA binding protein
3
nucleotide modification
1
recombinant protein
Date released
96
February, 2021
66
November, 2017
44
August, 2021
October, 2019
21
May, 2021
16
November, 2019
10
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
553
bam
502
bigWig
427
fastq
389
bed narrowPeak
bigBed narrowPeak
114
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
280
Homo sapiens
Biosample type
2021
tissue
958
primary cell
371
in vitro differentiated cells
284
cell line
stem cell
Organ
108
liver
77
epithelium
77
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
8
embryo
7
blood
7
bodily fluid
4
kidney
mammary gland
Project
273
AMP
9
T1D
2
community
Genome assembly (visualization)
167
hg19
129
GRCh38
Lab
237
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
79
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
biosample_type!
stem cell
files.file_type!
bigBed narrowPeak
month_released!
October, 2019
organ_slims!
mammary gland
BIOSAMPLE
ASSAY
284 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
85
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
GM12878
6
1
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