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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
458
ChIP-seq
52
total RNA-seq
21
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
458
DNA binding
52
Transcription
23
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
346
transcription factor
89
recombinant protein
74
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
2
other context
other post-translational modification
Date released
313
November, 2017
61
November, 2018
30
February, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
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
514
bam
450
bigWig
425
fastq
376
bed narrowPeak
353
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
58
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
545
Homo sapiens
Biosample type
2349
tissue
547
cell line
522
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
368
liver
86
pancreas
73
epithelium
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
8
embryo
1
mammary gland
Project
543
AMP
4
T1D
Genome assembly (visualization)
449
hg19
398
GRCh38
Lab
547
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:
85
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
award.project!
KPMP
organ_slims!
artery
target.investigated_as!
other post-translational modification
BIOSAMPLE
ASSAY
547 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
358
5
1
2
1
1
EndoC_BH1
15
33
19
1
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
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