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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
365
ChIP-seq
306
total RNA-seq
66
ATAC-seq
38
DNase-seq
11
single cell RNA-seq
11
snATAC-seq
7
Hi-C
6
small RNA-seq
4
MeRIP-seq
4
WGBS
3
FAIRE-seq
3
RRBS
3
pCHi-C
Assay category
365
DNA binding
323
Transcription
118
DNA accessibility
7
3D chromatin structure
7
DNA methylation
Target of assay
288
histone
288
histone modification
162
narrow histone mark
126
broad histone mark
64
control
18
transcription factor
9
RNA binding protein
2
nucleotide modification
Date released
159
August, 2017
126
July, 2018
104
October, 2019
85
November, 2017
51
October, 2018
39
November, 2019
37
May, 2021
32
June, 2019
30
May, 2019
24
May, 2022
22
July, 2019
21
October, 2017
19
February, 2023
13
February, 2020
11
March, 2020
11
September, 2018
9
November, 2018
8
April, 2018
8
January, 2021
6
September, 2017
5
March, 2019
4
November, 2020
2
August, 2021
1
August, 2022
Available data
709
bam
625
bigWig
338
bed narrowPeak
309
tsv
258
fastq
190
bigBed narrowPeak
134
tagAlign
62
bed broadPeak
61
bed bed3+
39
bigBed broadPeak
7
bed bedMethyl
7
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hdf5
3
hic
1
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
820
Homo sapiens
Biosample type
770
tissue
42
primary cell
15
cell line
Organ
946
pancreas
791
liver
684
connective tissue
epithelium
491
adipose tissue
354
kidney
353
heart
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
797
AMP
30
T1D
Genome assembly (visualization)
636
GRCh38
606
hg19
Lab
764
AMP-T2D consortium
51
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
7
inconsistent ontology term
1
audit script error
Audit category:
37
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
organ_slims!
epithelium
BIOSAMPLE
ASSAY
827 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
snATAC-seq
Hi-C
small RNA-seq
MeRIP-seq
WGBS
FAIRE-seq
RRBS
pCHi-C
tissue
islet of Langerhans
50
284
59
1
7
3
4
1
1
body of pancreas
35
3
4
4
2
2
brain
20
1
1
14
1
pancreas
16
2
2
4
1
2
1
1
1
layer of hippocampus
23
+ See 80 more…
primary cell
pancreatic endocrine cell
23
astrocyte of the cerebellum
3
1
1
pancreatic stellate cell
4
brain pericyte
1
1
cerebellar granule cell
2
+ See 4 more…
cell line
Panc1
13
1
1
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