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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
406
ChIP-seq
104
total RNA-seq
28
ATAC-seq
6
pCHi-C
3
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
406
DNA binding
104
Transcription
30
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
299
transcription factor
89
recombinant protein
70
control
54
RNA binding protein
34
histone
34
histone modification
20
chromatin remodeller
18
broad histone mark
16
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
46
November, 2018
30
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
10
August, 2021
5
January, 2019
1
December, 2018
1
February, 2023
1
May, 2020
1
October, 2022
Available data
522
bam
453
bigWig
367
fastq
336
bed narrowPeak
301
bigBed narrowPeak
110
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
552
Homo sapiens
Biosample type
2425
tissue
554
cell line
524
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
blood
61
bodily fluid
17
kidney
8
embryo
1
mammary gland
Project
550
AMP
4
T1D
Genome assembly (visualization)
460
hg19
410
GRCh38
Lab
554
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
85
inconsistent ontology term
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!
blood
BIOSAMPLE
ASSAY
554 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
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
Panc1
13
1
1
H1-hESC
8
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