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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
385
ChIP-seq
26
total RNA-seq
20
ATAC-seq
5
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
385
DNA binding
26
Transcription
22
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
345
transcription factor
89
recombinant protein
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
2
other context
2
other post-translational modification
Date released
259
November, 2017
February, 2021
58
November, 2018
28
December, 2018
21
May, 2021
21
October, 2019
20
January, 2019
14
November, 2019
11
March, 2020
10
August, 2021
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
414
bam
412
bigWig
376
bed narrowPeak
365
fastq
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
32
tsv
11
tagAlign
3
tar
2
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
444
Homo sapiens
Biosample type
1695
tissue
489
primary cell
446
cell line
282
in vitro differentiated cells
7
stem cell
Organ
312
liver
55
blood
55
bodily fluid
52
pancreas
45
epithelium
14
kidney
8
embryo
1
mammary gland
Project
442
AMP
4
T1D
Genome assembly (visualization)
409
hg19
372
GRCh38
Lab
446
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
54
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
zippedFastqFolder
month_released!
February, 2021
target.investigated_as!
control
BIOSAMPLE
ASSAY
446 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
304
5
1
1
1
GM12878
54
1
EndoC_BH1
13
7
19
1
2
1
Panc1
7
1
1
H1-hESC
8
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