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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
483
ChIP-seq
109
total RNA-seq
13
ATAC-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
1
whole genome sequencing assay
Assay category
483
DNA binding
111
Transcription
15
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
80
control
65
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
577
bam
517
bigWig
427
fastq
403
bed narrowPeak
355
bigBed narrowPeak
115
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
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
631
Homo sapiens
Biosample type
2693
tissue
876
primary cell
635
cell line
262
in vitro differentiated cells
10
stem cell
Organ
401
liver
66
artery
66
blood vessel
66
heart
66
vasculature
65
pancreas
61
blood
61
bodily fluid
52
epithelium
19
kidney
8
embryo
1
mammary gland
Project
625
AMP
8
T1D
2
community
Genome assembly (visualization)
525
hg19
459
GRCh38
Lab
594
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
65
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
month_released!
November, 2020
May, 2021
BIOSAMPLE
ASSAY
635 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-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
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
EndoC_BH1
14
29
3
1
3
2
2
1
Panc1
13
1
1
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