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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
129
ChIP-seq
107
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
129
DNA binding
107
Transcription
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
83
control
33
transcription factor
16
histone
16
histone modification
9
broad histone mark
8
recombinant protein
7
narrow histone mark
4
RNA binding protein
3
nucleotide modification
Date released
87
February, 2021
66
November, 2017
44
August, 2021
22
October, 2019
15
November, 2019
8
January, 2019
6
March, 2020
6
November, 2020
5
November, 2018
May, 2021
1
December, 2018
1
February, 2023
1
May, 2020
1
October, 2022
Available data
562
bam
509
bigWig
427
fastq
390
bed narrowPeak
bigBed narrowPeak
112
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
261
Homo sapiens
Biosample type
1825
tissue
277
primary cell
263
cell line
210
in vitro differentiated cells
8
stem cell
Organ
107
liver
58
artery
58
blood vessel
58
heart
58
pancreas
58
vasculature
51
epithelium
18
kidney
8
embryo
6
blood
6
bodily fluid
1
mammary gland
Project
263
AMP
8
T1D
2
community
Genome assembly (visualization)
158
hg19
123
GRCh38
Lab
223
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
65
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
assay_slims!
DNA accessibility
files.file_type!
bigBed narrowPeak
month_released!
May, 2021
BIOSAMPLE
ASSAY
263 results
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ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
85
14
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
EndoC_BH1
13
27
6
1
2
1
H1-hESC
8
Panc1
7
1
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