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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
116
ChIP-seq
96
total RNA-seq
28
ATAC-seq
6
pCHi-C
3
Hi-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
116
DNA binding
96
Transcription
30
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
transcription factor
89
recombinant protein
76
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
2
other context
2
other post-translational modification
Date released
90
February, 2021
74
November, 2017
23
October, 2019
21
May, 2021
15
November, 2019
11
March, 2020
August, 2021
9
January, 2019
4
November, 2018
3
December, 2018
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
224
bam
155
bigWig
102
tsv
90
fastq
48
bed narrowPeak
27
bigBed narrowPeak
15
bed broadPeak
15
bigBed broadPeak
15
tagAlign
3
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
252
Homo sapiens
Biosample type
2237
tissue
510
primary cell
265
in vitro differentiated cells
254
cell line
8
stem cell
Organ
83
liver
83
pancreas
70
epithelium
62
artery
62
blood vessel
62
heart
62
vasculature
10
blood
10
bodily fluid
10
kidney
1
mammary gland
Project
250
AMP
4
T1D
Genome assembly (visualization)
165
hg19
146
GRCh38
Lab
254
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
75
inconsistent ontology term
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
11
inconsistent control read length
1
inconsistent assembly
audit.ERROR.category!
inconsistent replicate
month_released!
August, 2021
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
254 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
74
5
2
1
1
EndoC_BH1
14
33
19
1
1
smooth muscle cell of the coronary artery
2
52
8
Panc1
13
1
1
GM12878
9
1
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