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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
478
ChIP-seq
61
total RNA-seq
ATAC-seq
6
MeRIP-seq
6
pCHi-C
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
Assay category
478
DNA binding
63
Transcription
4
3D chromatin structure
2
DNA accessibility
1
DNA methylation
DNA sequencing
Target of assay
357
transcription factor
89
recombinant protein
81
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
43
August, 2021
30
October, 2019
29
February, 2021
28
December, 2018
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
514
bam
463
bigWig
427
fastq
390
bed narrowPeak
355
bigBed narrowPeak
66
tsv
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
Organism
570
Homo sapiens
Biosample type
2243
tissue
875
primary cell
574
cell line
351
in vitro differentiated cells
10
stem cell
Organ
399
liver
73
pancreas
60
blood
60
bodily fluid
60
epithelium
58
artery
58
blood vessel
heart
58
vasculature
19
kidney
8
embryo
1
mammary gland
Project
563
AMP
9
T1D
2
community
Genome assembly (visualization)
461
hg19
398
GRCh38
Lab
528
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:
73
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
organ_slims!
heart
assay_slims!
DNA sequencing
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
574 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
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
cell line
HepG2
378
14
2
2
2
1
EndoC_BH1
15
33
6
1
3
2
2
1
GM12878
60
Panc1
13
1
1
H1-hESC
8
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