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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
482
ChIP-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
482
DNA binding
Transcription
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
83
control
65
RNA binding protein
36
histone
36
histone modification
30
chromatin remodeller
19
broad histone mark
17
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
28
December, 2018
27
August, 2021
24
October, 2019
18
January, 2019
14
November, 2019
9
February, 2021
6
November, 2020
4
March, 2020
1
February, 2023
1
May, 2020
1
October, 2022
Available data
464
bam
422
fastq
411
bigWig
390
bed narrowPeak
353
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
5
tsv
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
507
Homo sapiens
Biosample type
1077
tissue
509
cell line
213
primary cell
189
in vitro differentiated cells
8
stem cell
Organ
386
liver
60
blood
60
bodily fluid
37
pancreas
23
epithelium
14
kidney
6
artery
6
blood vessel
6
heart
6
vasculature
1
mammary gland
Project
509
AMP
7
T1D
Genome assembly (visualization)
409
hg19
346
GRCh38
Lab
478
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
35
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_slims!
DNA accessibility
Transcription
month_released!
February, 2018
BIOSAMPLE
ASSAY
509 results
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ChIP-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
2
2
2
1
1
GM12878
60
EndoC_BH1
13
6
1
2
1
Panc1
13
1
smooth muscle cell of the coronary artery
6
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