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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
459
ChIP-seq
48
total RNA-seq
6
pCHi-C
5
ATAC-seq
3
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
459
DNA binding
48
Transcription
7
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
346
transcription factor
89
recombinant protein
74
control
64
RNA binding protein
34
histone
34
histone modification
30
chromatin remodeller
18
broad histone mark
16
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
30
February, 2021
30
October, 2019
28
December, 2018
23
January, 2019
May, 2021
16
November, 2019
11
March, 2020
10
August, 2021
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
511
bam
447
bigWig
427
fastq
377
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
54
tsv
14
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
526
Homo sapiens
Biosample type
2252
tissue
528
cell line
467
primary cell
255
in vitro differentiated cells
8
stem cell
Organ
370
liver
66
artery
66
blood vessel
66
heart
vasculature
65
pancreas
61
blood
61
bodily fluid
52
epithelium
17
kidney
8
embryo
1
mammary gland
Project
525
AMP
3
T1D
Genome assembly (visualization)
446
hg19
395
GRCh38
Lab
528
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:
64
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
May, 2021
organ_slims!
intestine
vasculature
BIOSAMPLE
ASSAY
528 results
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ChIP-seq
total RNA-seq
pCHi-C
ATAC-seq
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
360
5
2
1
1
1
GM12878
60
1
EndoC_BH1
14
29
3
1
2
1
Panc1
13
1
1
H1-hESC
8
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