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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
104
total RNA-seq
29
ATAC-seq
6
pCHi-C
3
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
Assay category
406
DNA binding
104
Transcription
31
DNA accessibility
3
3D chromatin structure
Target of assay
293
transcription factor
73
control
73
recombinant protein
43
RNA binding protein
35
histone
35
histone modification
23
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
November, 2018
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
10
August, 2021
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
521
bam
451
bigWig
366
fastq
334
bed narrowPeak
299
bigBed narrowPeak
110
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
552
Homo sapiens
Biosample type
2399
tissue
554
cell line
523
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
324
liver
86
pancreas
73
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
46
blood
46
bodily fluid
17
kidney
8
embryo
1
mammary gland
Project
550
AMP
4
T1D
Genome assembly (visualization)
461
hg19
407
GRCh38
Lab
554
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Kyle Gaulton, UCSD
Audit category:
85
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
assay_title!
CRISPR genome editing followed by DNA sequencing
month_released!
November, 2018
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
cell line
HepG2
315
5
1
2
1
EndoC_BH1
15
33
19
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
45
1
Panc1
13
1
1
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