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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
406
ChIP-seq
96
total RNA-seq
29
ATAC-seq
6
MeRIP-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
406
DNA binding
98
Transcription
31
DNA accessibility
3
3D chromatin structure
Target of assay
293
transcription factor
76
control
73
recombinant protein
43
RNA binding protein
35
histone
35
histone modification
23
chromatin remodeller
18
broad histone mark
17
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
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
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
513
bam
443
bigWig
366
fastq
334
bed narrowPeak
299
bigBed narrowPeak
102
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
txt
Organism
553
Homo sapiens
Biosample type
2482
tissue
1083
primary cell
557
cell line
352
in vitro differentiated cells
10
stem cell
Organ
324
liver
90
pancreas
77
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
46
blood
46
bodily fluid
17
kidney
1
mammary gland
Project
546
AMP
9
T1D
2
community
Genome assembly (visualization)
453
hg19
399
GRCh38
Lab
544
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
89
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
month_released!
August, 2021
November, 2018
BIOSAMPLE
ASSAY
557 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-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
315
5
1
2
1
EndoC_BH1
15
33
19
6
3
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
45
1
Panc1
13
1
1
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