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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
109
total RNA-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
459
DNA binding
111
Transcription
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
354
transcription factor
82
recombinant protein
74
control
65
RNA binding protein
31
histone
31
histone modification
30
chromatin remodeller
16
narrow histone mark
15
broad histone mark
3
nucleotide modification
other context
2
other post-translational modification
Date released
313
November, 2017
86
February, 2021
61
November, 2018
44
August, 2021
28
December, 2018
October, 2019
23
January, 2019
15
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
541
bam
497
bigWig
425
fastq
377
bed narrowPeak
345
bigBed narrowPeak
114
tsv
57
bed broadPeak
57
bigBed broadPeak
20
tagAlign
3
tar
2
bedpe bed3+
2
hic
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
596
Homo sapiens
Biosample type
2054
tissue
763
primary cell
600
cell line
326
in vitro differentiated cells
7
stem cell
Organ
397
liver
60
blood
60
bodily fluid
58
artery
58
blood vessel
58
epithelium
58
heart
58
pancreas
58
vasculature
8
embryo
4
kidney
1
mammary gland
Project
589
AMP
9
T1D
2
community
Genome assembly (visualization)
494
hg19
432
GRCh38
Lab
553
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
60
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA accessibility
files.file_type!
bed bed3+
month_released!
October, 2019
target.investigated_as!
other context
BIOSAMPLE
ASSAY
600 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
376
14
2
1
2
1
1
EndoC_BH1
15
33
6
3
1
2
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
H1-hESC
8
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