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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
456
ChIP-seq
57
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
ATAC-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 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
456
DNA binding
59
Transcription
7
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
357
transcription factor
89
recombinant protein
81
control
65
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
other post-translational modification
Date released
305
November, 2017
61
November, 2018
43
August, 2021
30
February, 2021
28
December, 2018
26
October, 2019
23
January, 2019
May, 2021
11
March, 2020
10
November, 2019
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
491
bam
441
bigWig
417
fastq
372
bed narrowPeak
343
bigBed narrowPeak
63
tsv
50
bed broadPeak
50
bigBed broadPeak
8
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
550
Homo sapiens
Biosample type
2372
tissue
824
primary cell
554
cell line
216
in vitro differentiated cells
9
stem cell
Organ
390
liver
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
61
pancreas
52
epithelium
19
kidney
8
embryo
1
mammary gland
Project
544
AMP
8
T1D
2
community
Genome assembly (visualization)
441
hg19
377
GRCh38
Lab
508
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
65
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
20
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
May, 2021
organ_slims!
artery
target.investigated_as!
broad histone mark
other post-translational modification
BIOSAMPLE
ASSAY
554 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
ATAC-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
367
14
2
1
2
2
1
1
GM12878
60
1
EndoC_BH1
8
29
6
3
1
3
2
2
1
Panc1
9
1
1
H1-hESC
8
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