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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1278
total RNA-seq
1081
ChIP-seq
367
single cell RNA-seq
87
RNA microarray
74
WGBS
42
pCHi-C
26
Hi-C
21
RRBS
18
small RNA-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1663
Transcription
1081
DNA binding
DNA accessibility
96
DNA methylation
26
3D chromatin structure
Target of assay
864
histone modification
863
histone
438
narrow histone mark
425
broad histone mark
222
control
transcription factor
38
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
557
February, 2021
307
August, 2017
249
October, 2019
240
May, 2020
233
May, 2021
168
July, 2018
163
August, 2021
115
May, 2019
101
May, 2022
100
July, 2019
90
February, 2023
88
November, 2017
74
April, 2019
61
October, 2018
59
September, 2018
56
September, 2020
49
April, 2018
47
September, 2023
39
March, 2020
35
May, 2024
27
June, 2019
25
February, 2020
20
November, 2019
17
December, 2017
15
October, 2017
10
November, 2018
9
April, 2020
8
December, 2019
8
November, 2020
7
January, 2019
6
September, 2017
4
December, 2018
4
May, 2023
3
August, 2018
3
June, 2018
3
October, 2022
1
March, 2019
1
March, 2023
Available data
2057
bam
1949
bigWig
1333
tsv
735
bed narrowPeak
600
fastq
358
bigBed narrowPeak
338
tagAlign
156
txt
93
zippedFastqFolder
51
bed broadPeak
35
bed bedMethyl
35
bigBed bedMethyl
25
bed bed3+
17
hic
16
bigBed broadPeak
14
bedpe bed3+
8
csv
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
Organism
2994
Homo sapiens
Biosample type
2213
tissue
789
primary cell
302
in vitro differentiated cells
270
cell line
10
stem cell
Organ
681
pancreas
552
connective tissue
465
adipose tissue
313
epithelium
308
liver
246
brain
244
heart
170
kidney
147
bone element
115
vasculature
112
blood vessel
78
limb
61
musculature of body
40
nerve
33
artery
28
eye
19
vein
17
spleen
10
lung
5
gonad
5
ovary
4
skeleton
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
pituitary gland
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2512
AMP
227
HPAP
206
T1D
47
KPMP
9
LungMap
1
ITG
Genome assembly (visualization)
1889
hg19
1881
GRCh38
Lab
2351
AMP-T2D consortium
244
Kyle Gaulton, UCSD
227
Klaus Kaestner, Upenn
61
Katalin Susztak, Upenn
47
KPMP
35
Patrick T. Ellinor, Broad
20
Karen Mohlke, UNC
9
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
ITG
Audit category:
125
inconsistent ontology term
11
audit script error
Audit category:
52
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
inconsistent control run_type
assay_slims!
DNA accessibility
audit.WARNING.category!
inconsistent control run_type
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
3002 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
adipose tissue
382
2
3
1
islet of Langerhans
292
64
6
4
3
1
4
liver
167
108
1
3
1
1
1
1
kidney
49
26
64
1
1
bone element
84
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primary cell
monocyte
54
85
1
1
pancreatic alpha cell
52
13
12
31
1
Langerhans cell
85
pancreatic beta cell
21
13
12
16
1
exocrine cell
39
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