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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
135
ATAC-seq
106
total RNA-seq
87
single cell RNA-seq
56
ChIP-seq
56
snATAC-seq
47
WGBS
22
pCHi-C
14
Hi-C
9
RRBS
MeRIP-seq
5
STARR-seq
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
DNAme array
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
195
Transcription
193
DNA accessibility
57
DNA methylation
56
DNA binding
14
3D chromatin structure
1
DNA sequencing
Target of assay
37
histone
37
histone modification
23
broad histone mark
14
narrow histone mark
12
transcription factor
7
control
1
RNA binding protein
Date released
134
May, 2022
94
February, 2023
73
May, 2021
59
September, 2020
58
May, 2020
46
February, 2021
36
August, 2021
12
July, 2019
8
January, 2021
7
August, 2020
7
March, 2020
4
October, 2019
4
October, 2022
3
March, 2023
1
August, 2017
1
December, 2018
1
January, 2018
1
November, 2017
1
November, 2018
1
November, 2019
1
September, 2018
Available data
bam
1069
bigWig
836
fastq
681
bed narrowPeak
458
bigBed narrowPeak
333
tsv
153
zippedFastqFolder
114
tagAlign
105
bed broadPeak
105
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
548
Homo sapiens
Biosample type
685
tissue
478
primary cell
103
in vitro differentiated cells
74
cell line
7
stem cell
Organ
186
epithelium
175
pancreas
37
liver
9
blood
9
bodily fluid
9
kidney
5
vasculature
4
blood vessel
4
brain
3
connective tissue
2
vein
1
bone element
1
bone marrow
1
eye
heart
1
mammary gland
1
musculature of body
Project
324
HPAP
196
AMP
29
T1D
2
community
1
ITG
Genome assembly (visualization)
74
hg19
12
GRCh38
Lab
324
Klaus Kaestner, Upenn
127
AMP-T2D consortium
64
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
2
Anna Gloyn, Oxford
1
ITG
Audit category:
32
inconsistent ontology term
31
audit script error
Audit category:
1
inconsistent assembly
assay_title!
MeRIP-seq
files.file_type!
bam
organ_slims!
heart
BIOSAMPLE
ASSAY
552 results
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Clear Filters
ATAC-seq
total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNAme array
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
Langerhans cell
85
48
pancreatic alpha cell
29
42
31
1
pancreatic beta cell
16
11
16
1
exocrine cell
39
CD8-positive, alpha-beta T cell
2
33
1
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cell line
HepG2
9
19
2
2
2
1
EndoC_BH1
18
1
3
2
2
1
EndoC-BH1
1
1
HEK293T
2
GM12878
1
+ See 7 more…
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