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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
449
ChIP-seq
104
total RNA-seq
28
ATAC-seq
6
pCHi-C
3
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
449
DNA binding
104
Transcription
30
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
350
transcription factor
89
recombinant protein
76
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
narrow histone mark
2
other context
2
other post-translational modification
Date released
308
November, 2017
96
February, 2021
61
November, 2018
28
December, 2018
27
October, 2019
22
January, 2019
20
May, 2021
12
November, 2019
10
August, 2021
10
March, 2020
1
February, 2023
January, 2018
1
May, 2020
1
October, 2022
Available data
565
bam
490
bigWig
419
fastq
374
bed narrowPeak
345
bigBed narrowPeak
110
tsv
53
bed broadPeak
53
bigBed broadPeak
15
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
595
Homo sapiens
Biosample type
2114
tissue
597
cell line
459
primary cell
291
in vitro differentiated cells
6
stem cell
Organ
363
liver
77
pancreas
67
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
59
blood
59
bodily fluid
17
kidney
8
embryo
1
mammary gland
Project
595
AMP
2
T1D
Genome assembly (visualization)
497
hg19
448
GRCh38
Lab
597
AMP-T2D consortium
32
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 control
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
target.investigated_as!
narrow histone mark
month_released!
January, 2018
BIOSAMPLE
ASSAY
597 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
353
5
1
2
1
1
smooth muscle cell of the coronary artery
6
52
8
EndoC_BH1
9
33
19
1
2
1
GM12878
59
Panc1
10
1
1
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