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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
476
ChIP-seq
total RNA-seq
21
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
476
DNA binding
23
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
36
histone
36
histone modification
30
chromatin remodeller
19
broad histone mark
17
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
28
December, 2018
27
August, 2021
26
October, 2019
18
January, 2019
16
May, 2021
15
November, 2019
6
March, 2020
6
November, 2020
4
February, 2021
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
462
bam
422
fastq
412
bigWig
390
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
6
tsv
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
524
Homo sapiens
Biosample type
1352
tissue
526
cell line
491
primary cell
258
in vitro differentiated cells
8
stem cell
Organ
387
liver
61
blood
61
bodily fluid
57
pancreas
43
epithelium
15
kidney
14
artery
14
blood vessel
heart
14
vasculature
1
mammary gland
Project
526
AMP
7
T1D
2
community
Genome assembly (visualization)
412
hg19
346
GRCh38
Lab
495
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
54
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
organ_slims!
heart
assay_title!
total RNA-seq
BIOSAMPLE
ASSAY
526 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
1
2
2
2
1
1
GM12878
60
1
EndoC_BH1
13
19
6
1
2
1
Panc1
13
1
1
RCC 7860 HIF1a re-expression
4
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