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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
459
ChIP-seq
80
total RNA-seq
10
pCHi-C
9
ATAC-seq
5
STARR-seq
2
Hi-C
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
459
DNA binding
84
Transcription
10
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
360
transcription factor
89
recombinant protein
73
control
64
RNA binding protein
30
chromatin remodeller
21
histone
21
histone modification
11
narrow histone mark
10
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
70
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
23
January, 2019
15
October, 2019
10
March, 2020
4
March, 2023
3
December, 2017
January, 2018
1
May, 2020
1
October, 2022
Available data
522
bam
467
bigWig
430
fastq
385
bed narrowPeak
348
bigBed narrowPeak
89
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
4
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
568
Homo sapiens
Biosample type
2269
tissue
564
cell line
503
primary cell
340
in vitro differentiated cells
9
stem cell
Organ
401
liver
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
60
blood
60
bodily fluid
19
kidney
8
embryo
1
connective tissue
1
mammary gland
Project
569
AMP
4
community
Genome assembly (visualization)
474
hg19
412
GRCh38
Lab
535
AMP-T2D consortium
34
Bing Ren, UCSD
Kyle Gaulton, UCSD
4
Anna Gloyn, Oxford
Audit category:
17
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
28
inconsistent control read length
8
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
month_released!
January, 2018
organ_slims!
pancreas
BIOSAMPLE
ASSAY
573 results
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ChIP-seq
total RNA-seq
pCHi-C
ATAC-seq
STARR-seq
Hi-C
CRISPR RNA-seq
CRISPRi RNA-seq
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
1
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
H1-hESC
8
RCC 7860 HIF1a re-expression
4
1
+ See 12 more…
stem cell
hESC
3
SB Ad3.1
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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