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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
456
ChIP-seq
100
total RNA-seq
29
ATAC-seq
4
pCHi-C
3
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
Assay category
456
DNA binding
100
Transcription
30
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
343
transcription factor
82
recombinant protein
73
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
61
November, 2018
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
15
October, 2019
10
August, 2021
9
March, 2020
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
567
bam
496
bigWig
427
fastq
382
bed narrowPeak
354
bigBed narrowPeak
104
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
596
Homo sapiens
Biosample type
2315
tissue
598
cell line
488
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
370
liver
86
pancreas
73
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
kidney
8
embryo
1
mammary gland
Project
594
AMP
4
T1D
Genome assembly (visualization)
503
hg19
452
GRCh38
Lab
598
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
70
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
organ_slims!
kidney
BIOSAMPLE
ASSAY
598 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
cell line
HepG2
360
5
1
2
1
1
EndoC_BH1
15
33
19
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
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