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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
347
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
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
347
DNA binding
115
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA sequencing
Target of assay
304
transcription factor
control
73
recombinant protein
44
RNA binding protein
38
histone
38
histone modification
23
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
259
November, 2017
93
February, 2021
November, 2018
40
August, 2021
28
December, 2018
21
May, 2021
21
October, 2019
20
January, 2019
14
November, 2019
11
March, 2020
6
February, 2023
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
452
bigWig
448
bam
348
bed narrowPeak
307
fastq
299
bigBed narrowPeak
119
tsv
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
hdf5
1
txt
1
vcf
Organism
517
Homo sapiens
Biosample type
2527
tissue
1052
primary cell
521
cell line
357
in vitro differentiated cells
9
stem cell
Organ
295
liver
81
pancreas
74
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
43
blood
43
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
510
AMP
9
T1D
2
community
Genome assembly (visualization)
463
hg19
407
GRCh38
Lab
481
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
84
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
10
missing controlled_by
Audit category:
21
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
target.investigated_as!
control
month_released!
November, 2018
BIOSAMPLE
ASSAY
521 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
MeRIP-seq
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
273
14
1
2
2
2
1
EndoC_BH1
13
33
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
42
1
Panc1
7
1
1
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