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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
460
ChIP-seq
52
total RNA-seq
21
ATAC-seq
6
pCHi-C
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
460
DNA binding
52
Transcription
23
DNA accessibility
1
DNA methylation
Target of assay
346
transcription factor
89
recombinant protein
74
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
61
November, 2018
30
February, 2021
29
October, 2019
27
December, 2018
23
January, 2019
21
May, 2021
15
November, 2019
11
March, 2020
10
August, 2021
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
516
bam
451
bigWig
426
fastq
378
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
58
tsv
14
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
Organism
544
Homo sapiens
Biosample type
2339
tissue
546
cell line
516
primary cell
336
in vitro differentiated cells
8
stem cell
Organ
369
liver
84
pancreas
72
epithelium
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
8
embryo
1
mammary gland
Project
542
AMP
4
T1D
Genome assembly (visualization)
449
hg19
399
GRCh38
Lab
546
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
84
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
organ_slims!
artery
assay_title!
Hi-C
BIOSAMPLE
ASSAY
546 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
360
5
1
2
1
EndoC_BH1
15
33
19
2
1
GM12878
60
1
Panc1
13
1
H1-hESC
8
RCC 7860 HIF1a re-expression
4
1
RCC 7860 vector
3
1
1
RCC 7860 HIF2a over-expression
3
1
early embryonic cell
2
glomerular visceral epithelial cell
1
1
iPSC derived cell line
2
MCF-7
1
MIN6
1
RCC 7860 VHL
1
fibroblast cell line
1
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