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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
487
ChIP-seq
113
total RNA-seq
ATAC-seq
10
pCHi-C
6
MeRIP-seq
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
487
DNA binding
117
Transcription
4
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
84
control
65
RNA binding protein
40
histone
40
histone modification
30
chromatin remodeller
20
broad histone mark
20
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
87
February, 2021
61
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
15
November, 2019
13
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
4
March, 2023
3
December, 2017
1
January, 2018
1
May, 2020
1
October, 2022
Available data
575
bam
522
bigWig
431
fastq
396
bed narrowPeak
355
bigBed narrowPeak
122
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
6
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
637
Homo sapiens
Biosample type
2477
tissue
888
primary cell
633
cell line
352
in vitro differentiated cells
10
stem cell
Organ
400
liver
73
pancreas
60
blood
60
bodily fluid
60
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
19
kidney
8
embryo
1
connective tissue
1
mammary gland
Project
630
AMP
9
T1D
4
community
Genome assembly (visualization)
520
hg19
457
GRCh38
1
hg18
Lab
594
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
4
Anna Gloyn, Oxford
Audit category:
74
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
28
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
643 results
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Clear Filters
ChIP-seq
total RNA-seq
pCHi-C
MeRIP-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
GRO-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
2
2
1
1
EndoC_BH1
15
33
6
1
3
2
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
1
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stem cell
hESC
3
1
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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