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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
161
ChIP-seq
59
total RNA-seq
21
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
161
DNA binding
59
Transcription
23
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
116
transcription factor
31
RNA binding protein
25
control
23
recombinant protein
21
histone
21
histone modification
15
chromatin remodeller
11
broad histone mark
10
narrow histone mark
3
nucleotide modification
Date released
November, 2017
61
November, 2018
44
August, 2021
30
February, 2021
30
October, 2019
28
December, 2018
23
January, 2019
20
May, 2021
16
November, 2019
8
March, 2020
6
November, 2020
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
198
bam
194
bigWig
141
bed narrowPeak
112
fastq
106
bigBed narrowPeak
65
tsv
3
bed bed3+
2
bedpe bed3+
2
hic
2
tagAlign
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
268
Homo sapiens
Biosample type
2465
tissue
522
primary cell
394
in vitro differentiated cells
270
cell line
8
stem cell
Organ
88
pancreas
86
liver
75
epithelium
66
artery
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
270
AMP
9
T1D
2
community
Genome assembly (visualization)
196
hg19
179
GRCh38
Lab
230
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
88
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
3
missing controlled_by
Audit category:
5
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
organ_slims!
blood vessel
month_released!
November, 2017
BIOSAMPLE
ASSAY
270 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
63
14
1
2
2
2
1
1
EndoC_BH1
13
31
19
6
1
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
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