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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
484
ChIP-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
484
DNA binding
Transcription
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
83
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
26
August, 2021
24
October, 2019
18
January, 2019
13
November, 2019
9
February, 2021
6
February, 2023
6
November, 2020
5
March, 2020
1
May, 2020
1
May, 2021
1
October, 2022
Available data
466
bam
422
fastq
413
bigWig
392
bed narrowPeak
353
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
5
tsv
3
tar
2
bed bed3+
2
bedpe bed3+
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
512
Homo sapiens
Biosample type
1069
tissue
514
cell line
358
primary cell
209
in vitro differentiated cells
8
stem cell
Organ
385
liver
60
blood
60
bodily fluid
38
pancreas
24
epithelium
14
kidney
6
artery
6
blood vessel
6
heart
6
vasculature
1
mammary gland
Project
507
AMP
7
T1D
Genome assembly (visualization)
409
hg19
348
GRCh38
Lab
479
AMP-T2D consortium
24
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
36
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
assay_slims!
DNA accessibility
Transcription
files.file_type!
hic
BIOSAMPLE
ASSAY
514 results
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Clear Filters
ChIP-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
2
2
1
1
1
GM12878
60
EndoC_BH1
15
6
3
2
2
1
Panc1
13
1
smooth muscle cell of the coronary artery
6
RCC 7860 HIF1a re-expression
4
RCC 7860 vector
3
1
RCC 7860 HIF2a over-expression
3
HEK293T
2
iPSC derived cell line
2
MCF-7
1
MIN6
1
RCC 7860 VHL
1
Synthesized DNA
1
fibroblast cell line
1
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