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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
464
ChIP-seq
96
total RNA-seq
29
ATAC-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-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
Assay category
464
DNA binding
98
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
350
transcription factor
89
recombinant protein
76
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
2
other context
other post-translational modification
Date released
313
November, 2017
96
February, 2021
61
November, 2018
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
572
bam
498
bigWig
425
fastq
388
bed narrowPeak
353
bigBed narrowPeak
102
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
606
Homo sapiens
Biosample type
2541
tissue
1084
primary cell
610
cell line
352
in vitro differentiated cells
10
stem cell
Organ
368
liver
84
pancreas
71
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
1
mammary gland
Project
599
AMP
9
T1D
2
community
Genome assembly (visualization)
505
hg19
454
GRCh38
Lab
603
AMP-T2D consortium
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
83
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
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
month_released!
August, 2021
target.investigated_as!
other post-translational modification
BIOSAMPLE
ASSAY
610 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
358
5
1
2
1
1
EndoC_BH1
15
33
19
3
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
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