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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
330
ChIP-seq
108
total RNA-seq
29
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
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
330
DNA binding
110
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
347
transcription factor
89
recombinant protein
control
RNA binding protein
37
histone
37
histone modification
24
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
225
November, 2017
93
February, 2021
39
August, 2021
37
November, 2018
26
December, 2018
21
May, 2021
21
October, 2019
January, 2019
13
November, 2019
11
March, 2020
6
February, 2023
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
432
bigWig
428
bam
332
bed narrowPeak
288
fastq
285
bigBed narrowPeak
114
tsv
55
bed broadPeak
55
bigBed broadPeak
16
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
2
tar
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
496
Homo sapiens
Biosample type
2556
tissue
1043
primary cell
500
cell line
346
in vitro differentiated cells
9
stem cell
Organ
282
liver
80
pancreas
73
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
36
blood
36
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
489
AMP
9
T1D
2
community
Genome assembly (visualization)
441
hg19
392
GRCh38
Lab
461
AMP-T2D consortium
29
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
83
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
11
missing controlled_by
Audit category:
20
inconsistent control read length
5
inconsistent control run_type
1
inconsistent assembly
month_released!
January, 2019
target.investigated_as!
RNA binding protein
control
BIOSAMPLE
ASSAY
500 results
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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
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
264
9
1
2
2
2
1
1
EndoC_BH1
12
33
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
35
1
Panc1
7
1
1
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