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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
451
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
451
DNA binding
113
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
358
transcription factor
89
recombinant protein
83
control
64
RNA binding protein
38
histone
38
histone modification
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
297
November, 2017
96
February, 2021
54
November, 2018
44
August, 2021
30
October, 2019
26
December, 2018
21
May, 2021
17
January, 2019
16
November, 2019
11
March, 2020
6
November, 2020
5
February, 2023
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
552
bam
492
bigWig
397
fastq
374
bed narrowPeak
325
bigBed narrowPeak
119
tsv
55
bed broadPeak
55
bigBed broadPeak
20
tagAlign
3
bed bed3+
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
625
Homo sapiens
Biosample type
2775
tissue
1085
primary cell
626
cell line
391
in vitro differentiated cells
8
stem cell
Organ
378
liver
91
pancreas
78
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
51
blood
51
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
617
AMP
9
T1D
Genome assembly (visualization)
497
hg19
436
GRCh38
Lab
581
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
92
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
15
inconsistent control read length
1
inconsistent assembly
assay_title!
CRISPR genome editing followed by sgRNA sequencing
files.file_type!
tar
month_released!
March, 2023
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
626 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
355
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
6
1
3
2
2
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
1
Panc1
13
1
1
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