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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
466
ChIP-seq
96
total RNA-seq
29
ATAC-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
466
DNA binding
98
Transcription
31
DNA accessibility
3
3D chromatin structure
Target of assay
350
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
315
November, 2017
96
February, 2021
60
November, 2018
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
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
574
bam
500
bigWig
427
fastq
390
bed narrowPeak
355
bigBed narrowPeak
102
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
607
Homo sapiens
Biosample type
2519
tissue
1068
primary cell
611
cell line
352
in vitro differentiated cells
10
stem cell
Organ
369
liver
84
pancreas
71
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
1
mammary gland
Project
600
AMP
9
T1D
2
community
Genome assembly (visualization)
507
hg19
455
GRCh38
Lab
604
AMP-T2D consortium
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
83
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
August, 2021
files.file_type!
bigBed bedMethyl
BIOSAMPLE
ASSAY
611 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
360
5
1
2
1
EndoC_BH1
15
33
19
3
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
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