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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
29
ATAC-seq
6
MeRIP-seq
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
484
DNA binding
Transcription
31
DNA accessibility
4
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
27
August, 2021
26
October, 2019
18
January, 2019
17
February, 2021
17
May, 2021
15
November, 2019
6
February, 2023
6
November, 2020
3
March, 2020
1
January, 2018
1
October, 2022
Available data
478
bam
422
fastq
418
bigWig
404
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
tsv
1
txt
1
vcf
Organism
539
Homo sapiens
Biosample type
1485
tissue
635
primary cell
541
cell line
251
in vitro differentiated cells
4
stem cell
Organ
385
liver
61
blood
61
bodily fluid
59
pancreas
45
epithelium
14
artery
14
blood vessel
14
heart
14
vasculature
13
kidney
Project
534
AMP
7
T1D
Genome assembly (visualization)
425
hg19
360
GRCh38
Lab
505
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
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
assay_slims!
Transcription
assay_title!
pCHi-C
BIOSAMPLE
ASSAY
541 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
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
1
1
GM12878
60
1
EndoC_BH1
15
19
6
1
3
2
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
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