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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
438
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
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
Assay category
438
DNA binding
115
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
DNA sequencing
Target of assay
336
transcription factor
89
recombinant protein
83
control
63
RNA binding protein
38
histone
38
histone modification
28
chromatin remodeller
19
broad histone mark
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
308
November, 2017
96
February, 2021
61
November, 2018
41
August, 2021
December, 2018
27
October, 2019
22
January, 2019
20
May, 2021
12
November, 2019
10
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
538
bam
476
bigWig
391
fastq
359
bed narrowPeak
318
bigBed narrowPeak
119
tsv
53
bed broadPeak
53
bigBed broadPeak
15
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
Organism
610
Homo sapiens
Biosample type
2446
tissue
973
primary cell
614
cell line
339
in vitro differentiated cells
9
stem cell
Organ
390
liver
83
pancreas
73
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
33
blood
33
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
605
AMP
7
T1D
2
community
Genome assembly (visualization)
484
hg19
421
GRCh38
Lab
570
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
86
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
target.investigated_as!
narrow histone mark
month_released!
December, 2018
assay_slims!
DNA sequencing
BIOSAMPLE
ASSAY
614 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
369
14
1
2
2
1
1
EndoC_BH1
9
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
32
1
Panc1
10
1
1
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