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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
401
ChIP-seq
113
total RNA-seq
29
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
401
DNA binding
115
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA sequencing
Target of assay
304
transcription factor
80
control
73
recombinant protein
44
RNA binding protein
38
histone
38
histone modification
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
300
November, 2017
96
February, 2021
November, 2018
44
August, 2021
30
October, 2019
26
December, 2018
21
May, 2021
17
January, 2019
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
498
bam
442
bigWig
343
fastq
325
bed narrowPeak
276
bigBed narrowPeak
119
tsv
55
bed broadPeak
55
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
hdf5
1
txt
1
vcf
Organism
574
Homo sapiens
Biosample type
2709
tissue
1086
primary cell
578
cell line
391
in vitro differentiated cells
10
stem cell
Organ
340
liver
92
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
38
blood
38
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
567
AMP
9
T1D
2
community
Genome assembly (visualization)
453
hg19
386
GRCh38
Lab
531
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
92
inconsistent ontology term
1
inconsistent replicate
Audit category:
6
missing controlled_by
Audit category:
15
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
chromatin remodeller
month_released!
November, 2018
BIOSAMPLE
ASSAY
578 results
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Clear Filters
ChIP-seq
total RNA-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
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
318
14
1
2
2
2
1
EndoC_BH1
15
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
37
1
Panc1
13
1
1
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