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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
400
ChIP-seq
61
total RNA-seq
21
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
400
DNA binding
63
Transcription
23
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
357
transcription factor
89
recombinant protein
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
259
November, 2017
58
November, 2018
40
August, 2021
29
February, 2021
28
December, 2018
21
May, 2021
21
October, 2019
20
January, 2019
14
November, 2019
11
March, 2020
6
February, 2023
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
Available data
453
bigWig
442
bam
392
bed narrowPeak
365
fastq
355
bigBed narrowPeak
67
tsv
59
bed broadPeak
59
bigBed broadPeak
12
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
511
Homo sapiens
Biosample type
2293
tissue
1042
primary cell
514
cell line
356
in vitro differentiated cells
9
stem cell
Organ
341
liver
81
pancreas
74
epithelium
64
artery
64
blood vessel
heart
64
vasculature
55
blood
55
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
503
AMP
9
T1D
2
community
Genome assembly (visualization)
453
hg19
400
GRCh38
Lab
474
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:
84
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
organ_slims!
heart
assay_title!
MPRA
target.investigated_as!
control
BIOSAMPLE
ASSAY
514 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
318
14
1
2
2
2
1
1
EndoC_BH1
13
33
19
1
3
3
2
2
1
GM12878
54
1
Panc1
7
1
1
H1-hESC
8
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