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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
397
ChIP-seq
109
total RNA-seq
29
ATAC-seq
4
Hi-C
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
397
DNA binding
111
Transcription
30
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
354
transcription factor
82
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
93
February, 2021
58
November, 2018
38
August, 2021
28
December, 2018
21
May, 2021
20
January, 2019
14
November, 2019
9
March, 2020
9
October, 2019
6
February, 2023
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
497
bigWig
494
bam
396
bed narrowPeak
365
fastq
354
bigBed narrowPeak
113
tsv
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
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
559
Homo sapiens
Biosample type
2257
tissue
1020
primary cell
563
cell line
357
in vitro differentiated cells
9
stem cell
Organ
341
liver
81
pancreas
74
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
55
blood
55
bodily fluid
kidney
8
embryo
1
mammary gland
Project
552
AMP
9
T1D
2
community
Genome assembly (visualization)
505
hg19
452
GRCh38
Lab
525
AMP-T2D consortium
28
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
72
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
target.investigated_as!
control
organ_slims!
kidney
BIOSAMPLE
ASSAY
563 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
pCHi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
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
EndoC_BH1
13
33
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
54
1
Panc1
7
1
1
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