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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
404
ChIP-seq
29
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
MeRIP-seq
2
Capture-C
2
DNase-seq
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
404
DNA binding
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
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
28
December, 2018
23
August, 2021
17
May, 2021
17
October, 2019
15
February, 2021
15
January, 2019
13
November, 2019
7
March, 2020
February, 2023
3
November, 2020
1
January, 2018
1
May, 2020
1
October, 2022
Available data
405
bigWig
404
bed narrowPeak
402
bam
360
fastq
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
6
tsv
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
457
Homo sapiens
Biosample type
1282
tissue
608
primary cell
458
cell line
207
in vitro differentiated cells
7
stem cell
Organ
327
liver
55
blood
55
bodily fluid
47
pancreas
39
epithelium
12
artery
12
blood vessel
12
heart
12
kidney
12
vasculature
1
mammary gland
Project
456
AMP
2
T1D
Genome assembly (visualization)
413
hg19
360
GRCh38
Lab
434
AMP-T2D consortium
21
Bing Ren, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
48
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
assay_slims!
Transcription
month_released!
February, 2023
target.investigated_as!
control
BIOSAMPLE
ASSAY
458 results
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ChIP-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
MeRIP-seq
Capture-C
DNase-seq
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
318
1
2
2
2
1
1
GM12878
54
1
EndoC_BH1
13
19
1
3
2
smooth muscle cell of the coronary artery
4
8
Panc1
7
1
1
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