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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
470
ChIP-seq
112
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
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
470
DNA binding
114
Transcription
28
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
359
transcription factor
89
recombinant protein
81
control
64
RNA binding protein
29
chromatin remodeller
28
histone
28
histone modification
15
narrow histone mark
13
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
28
October, 2019
27
December, 2018
23
January, 2019
21
May, 2021
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
564
bam
507
bigWig
426
fastq
389
bed narrowPeak
352
bigBed narrowPeak
118
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
639
Homo sapiens
Biosample type
2531
tissue
1057
primary cell
643
cell line
388
in vitro differentiated cells
10
stem cell
Organ
401
liver
75
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
62
epithelium
60
blood
60
bodily fluid
18
kidney
8
embryo
1
mammary gland
Project
632
AMP
9
T1D
2
community
Genome assembly (visualization)
513
hg19
448
GRCh38
Lab
596
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:
76
inconsistent ontology term
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
assay_title!
DNase-seq
audit.ERROR.category!
inconsistent control
lab.title!
Maike Sander, UCSD
month_released!
November, 2019
BIOSAMPLE
ASSAY
643 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
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
378
14
1
2
2
2
1
1
EndoC_BH1
2
32
18
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
Panc1
13
1
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