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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
418
ChIP-seq
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
418
DNA binding
22
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA methylation
1
DNA sequencing
Target of assay
306
transcription factor
89
recombinant protein
75
control
55
RNA binding protein
37
histone
37
histone modification
20
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
46
November, 2018
27
August, 2021
26
October, 2019
17
May, 2021
15
November, 2019
7
March, 2020
6
February, 2023
6
November, 2020
4
February, 2021
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
404
bam
362
fastq
359
bigWig
338
bed narrowPeak
301
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
14
tagAlign
6
tsv
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
470
Homo sapiens
Biosample type
1620
tissue
798
primary cell
474
cell line
258
in vitro differentiated cells
10
stem cell
Organ
387
liver
blood
61
bodily fluid
59
pancreas
45
epithelium
15
kidney
14
artery
14
blood vessel
14
heart
vasculature
1
mammary gland
Project
465
AMP
7
T1D
2
community
Genome assembly (visualization)
359
hg19
294
GRCh38
Lab
436
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
56
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
assay_title!
total RNA-seq
organ_slims!
vasculature
blood
BIOSAMPLE
ASSAY
474 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
2
2
2
1
1
EndoC_BH1
15
19
6
1
3
2
2
1
Panc1
13
1
1
RCC 7860 HIF1a re-expression
4
RCC 7860 vector
3
1
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