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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
391
ChIP-seq
79
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
391
DNA binding
81
Transcription
11
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
360
transcription factor
89
recombinant protein
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
259
November, 2017
67
February, 2021
58
November, 2018
38
August, 2021
28
December, 2018
20
January, 2019
19
October, 2019
6
March, 2020
5
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
459
bigWig
457
bam
389
bed narrowPeak
365
fastq
354
bigBed narrowPeak
84
tsv
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
502
Homo sapiens
Biosample type
2574
tissue
668
primary cell
505
cell line
337
in vitro differentiated cells
9
stem cell
Organ
341
liver
81
pancreas
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
55
blood
55
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
498
AMP
5
T1D
2
community
Genome assembly (visualization)
465
hg19
415
GRCh38
Lab
468
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
13
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
organ_slims!
epithelium
esophagus
target.investigated_as!
control
BIOSAMPLE
ASSAY
505 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
318
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
54
1
Panc1
7
1
1
H1-hESC
8
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