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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
105
ChIP-seq
total RNA-seq
93
ATAC-seq
87
single cell RNA-seq
56
snATAC-seq
47
WGBS
22
pCHi-C
10
RRBS
9
Hi-C
6
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
151
DNA accessibility
105
DNA binding
89
Transcription
58
DNA methylation
9
3D chromatin structure
1
DNA sequencing
Target of assay
95
control
8
histone
8
histone modification
5
broad histone mark
5
transcription factor
3
narrow histone mark
3
nucleotide modification
2
RNA binding protein
1
recombinant protein
Date released
134
May, 2022
59
February, 2021
May, 2020
50
May, 2021
47
November, 2017
40
September, 2020
21
October, 2019
18
February, 2023
14
August, 2021
13
August, 2017
9
July, 2019
8
January, 2021
8
June, 2019
7
November, 2020
5
March, 2020
5
November, 2018
4
November, 2019
4
October, 2022
3
January, 2019
3
March, 2023
1
December, 2018
1
May, 2019
1
September, 2018
Available data
892
bam
bigWig
711
fastq
699
bed narrowPeak
464
bigBed narrowPeak
153
zippedFastqFolder
125
tsv
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
38
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
451
Homo sapiens
Biosample type
846
tissue
325
primary cell
130
cell line
126
in vitro differentiated cells
7
stem cell
Organ
151
epithelium
137
pancreas
62
liver
18
vasculature
17
blood vessel
15
kidney
14
blood
14
bodily fluid
13
heart
10
artery
7
connective tissue
7
vein
3
musculature of body
2
eye
1
bone element
1
bone marrow
1
brain
1
mammary gland
Project
222
HPAP
201
AMP
29
T1D
2
community
1
ITG
Genome assembly (visualization)
45
hg19
27
GRCh38
Lab
222
Klaus Kaestner, Upenn
184
AMP-T2D consortium
29
Kyle Gaulton, UCSD
11
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
50
inconsistent ontology term
31
audit script error
1
inconsistent replicate
Audit category:
1
missing controlled_by
assay_title!
total RNA-seq
files.file_type!
bigWig
month_released!
May, 2020
BIOSAMPLE
ASSAY
455 results
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Clear Filters
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
RRBS
Hi-C
MeRIP-seq
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
6
22
31
1
pancreatic beta cell
6
13
16
1
monocyte
1
13
1
1
peripheral blood mononuclear cell
8
+ See 39 more…
cell line
HepG2
52
1
1
2
2
1
EndoC_BH1
2
17
1
6
3
2
2
1
smooth muscle cell of the coronary artery
2
8
Panc1
7
GM12878
6
+ See 11 more…
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