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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
107
ATAC-seq
97
total RNA-seq
62
ChIP-seq
50
WGBS
12
Hi-C
11
snATAC-seq
10
MeRIP-seq
4
pCHi-C
2
Capture-C
2
STARR-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
119
DNA accessibility
98
Transcription
62
DNA binding
51
DNA methylation
12
3D chromatin structure
1
DNA sequencing
Target of assay
37
histone
37
histone modification
21
broad histone mark
18
control
16
narrow histone mark
12
transcription factor
5
nucleotide modification
1
RNA binding protein
Date released
120
May, 2022
56
February, 2023
48
August, 2017
35
August, 2021
19
September, 2020
17
May, 2021
10
March, 2020
10
November, 2020
8
February, 2021
8
January, 2021
7
August, 2020
July, 2019
4
July, 2018
4
March, 2019
4
October, 2019
3
October, 2022
2
February, 2020
2
November, 2019
1
August, 2022
1
December, 2018
1
May, 2020
1
November, 2017
1
October, 2017
Available data
bam
1233
bigWig
936
fastq
655
bed narrowPeak
580
tsv
449
bigBed narrowPeak
105
tagAlign
84
bed broadPeak
80
zippedFastqFolder
70
bigBed broadPeak
41
bed bed3+
9
bedpe bed3+
9
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
3
tar
1
bed bed3
1
bedpe
1
csv
1
hdf5
1
vcf
Organism
361
Homo sapiens
Biosample type
152
primary cell
146
tissue
64
cell line
Organ
255
pancreas
206
kidney
199
epithelium
178
heart
107
liver
93
bone element
89
connective tissue
53
eye
49
adipose tissue
48
blood vessel
48
vasculature
39
artery
38
brain
34
musculature of body
20
lung
9
blood
9
bodily fluid
8
skeleton
5
gonad
5
ovary
4
limb
2
intestine
thymus
2
vein
1
adrenal gland
1
bone marrow
1
embryo
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
182
AMP
152
HPAP
28
T1D
Genome assembly (visualization)
59
hg19
14
GRCh38
Lab
152
Klaus Kaestner, Upenn
95
AMP-T2D consortium
40
Karen Mohlke, UNC
35
Bing Ren, UCSD
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
27
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
bam
month_released!
July, 2019
organ_slims!
thymus
BIOSAMPLE
ASSAY
362 results
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Clear Filters
ATAC-seq
total RNA-seq
ChIP-seq
WGBS
Hi-C
snATAC-seq
MeRIP-seq
pCHi-C
Capture-C
STARR-seq
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
primary cell
pancreatic alpha cell
29
42
31
1
pancreatic beta cell
16
11
16
1
pancreatic acinar cell
4
1
tissue
liver
20
20
23
3
1
1
1
1
islet of Langerhans
20
12
20
3
7
4
pancreas
1
1
4
1
right lobe of liver
1
1
body of pancreas
1
cell line
HepG2
9
19
2
2
2
1
EndoC_BH1
18
1
6
2
1
Panc1
1
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