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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
395
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
395
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
other context
2
other post-translational modification
Date released
257
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
495
bigWig
492
bam
394
bed narrowPeak
363
fastq
352
bigBed narrowPeak
113
tsv
58
bed broadPeak
58
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
557
Homo sapiens
Biosample type
2294
tissue
1020
primary cell
561
cell line
357
in vitro differentiated cells
9
stem cell
Organ
339
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
550
AMP
9
T1D
2
community
Genome assembly (visualization)
503
hg19
450
GRCh38
Lab
523
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
other context
organ_slims!
kidney
BIOSAMPLE
ASSAY
561 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
316
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
H1-hESC
8
EndoC-BH1
1
1
early embryonic cell
2
MCF-7
1
MIN6
1
Synthesized DNA
1
fibroblast cell line
1
iPSC derived cell line
1
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