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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
476
ChIP-seq
35
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
DNase-seq
2
HiChIP
1
WGBS
1
whole genome sequencing assay
Assay category
476
DNA binding
35
Transcription
22
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
356
transcription factor
89
recombinant protein
80
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
February, 2021
61
November, 2018
44
August, 2021
29
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
November, 2020
5
February, 2023
1
January, 2018
1
May, 2020
Available data
487
bam
438
bigWig
427
fastq
390
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
41
tsv
12
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
vcf
Organism
561
Homo sapiens
Biosample type
2223
tissue
1038
primary cell
561
cell line
368
in vitro differentiated cells
8
stem cell
Organ
399
liver
64
pancreas
61
blood
61
bodily fluid
52
epithelium
19
kidney
8
embryo
1
mammary gland
Project
552
AMP
9
T1D
Genome assembly (visualization)
436
hg19
371
GRCh38
Lab
516
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
66
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
inconsistent assembly
audit.WARNING.category!
inconsistent assembly
month_released!
February, 2021
BIOSAMPLE
ASSAY
561 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
DNase-seq
HiChIP
WGBS
whole genome sequencing assay
cell line
HepG2
378
14
2
1
2
1
1
GM12878
60
1
EndoC_BH1
15
7
19
6
3
1
2
2
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
HEK293T
2
early embryonic cell
2
glomerular visceral epithelial cell
1
1
MCF-7
1
RCC 7860 VHL
1
Synthesized DNA
1
fibroblast cell line
1
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