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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
21
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
whole genome sequencing assay
Assay category
478
DNA binding
Transcription
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
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
28
December, 2018
27
August, 2021
26
October, 2019
18
January, 2019
17
May, 2021
15
November, 2019
7
March, 2020
6
February, 2023
6
November, 2020
4
February, 2021
1
January, 2018
1
May, 2020
1
October, 2022
Available data
464
bam
422
fastq
414
bigWig
392
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
531
Homo sapiens
Biosample type
1390
tissue
617
primary cell
533
cell line
256
in vitro differentiated cells
8
stem cell
Organ
387
liver
61
blood
61
bodily fluid
59
pancreas
45
epithelium
15
kidney
14
artery
14
blood vessel
14
heart
vasculature
1
mammary gland
Project
526
AMP
7
T1D
Genome assembly (visualization)
414
hg19
348
GRCh38
Lab
497
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
56
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!
vasculature
assay_slims!
Transcription
BIOSAMPLE
ASSAY
533 results
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Clear Filters
ChIP-seq
ATAC-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
whole genome sequencing assay
cell line
HepG2
378
1
2
2
2
1
1
GM12878
60
1
EndoC_BH1
15
19
6
1
3
2
2
1
Panc1
13
1
1
RCC 7860 HIF1a re-expression
4
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