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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
1186
ChIP-seq
460
ATAC-seq
single cell RNA-seq
209
DNase-seq
87
RNA microarray
84
snATAC-seq
WGBS
42
pCHi-C
26
Hi-C
21
RRBS
18
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1296
Transcription
1186
DNA binding
758
DNA accessibility
26
3D chromatin structure
22
DNA methylation
Target of assay
865
histone modification
864
histone
439
narrow histone mark
425
broad histone mark
219
control
104
transcription factor
38
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
569
February, 2021
340
May, 2020
334
August, 2017
276
October, 2019
246
May, 2021
218
June, 2019
182
February, 2023
127
August, 2021
125
May, 2022
120
July, 2018
120
May, 2019
93
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
72
September, 2018
48
December, 2017
41
March, 2020
40
May, 2024
40
November, 2019
25
February, 2020
23
October, 2017
20
November, 2018
19
September, 2020
16
January, 2021
12
May, 2023
11
September, 2017
10
April, 2020
10
November, 2020
7
August, 2020
7
December, 2018
7
December, 2019
7
January, 2019
5
March, 2019
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2393
bam
2263
bigWig
1279
bed narrowPeak
1131
tsv
670
bigBed narrowPeak
636
fastq
338
tagAlign
262
bed broadPeak
242
bed bed3+
225
bigBed broadPeak
144
txt
64
xls
60
zippedFastqFolder
19
bed bedMethyl
19
bigBed bedMethyl
17
hic
14
bedpe bed3+
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3415
Homo sapiens
Biosample type
2570
tissue
854
primary cell
661
cell line
392
in vitro differentiated cells
10
stem cell
Organ
720
pancreas
576
connective tissue
484
adipose tissue
370
liver
304
epithelium
283
brain
271
kidney
225
heart
162
vasculature
159
bone element
156
blood vessel
121
limb
94
musculature of body
73
artery
61
eye
43
nerve
23
spleen
22
vein
18
ureter
16
skeleton
11
lung
8
blood
8
bodily fluid
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2986
AMP
235
T1D
192
HPAP
10
LungMap
1
ITG
Genome assembly (visualization)
2277
hg19
2273
GRCh38
Lab
2707
AMP-T2D consortium
291
Kyle Gaulton, UCSD
192
Klaus Kaestner, Upenn
131
Katalin Susztak, Upenn
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
10
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
138
inconsistent ontology term
35
audit script error
27
inconsistent control
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
assay_title!
WGBS
single cell RNA-seq
BIOSAMPLE
ASSAY
3424 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
292
71
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
1
liver
167
145
20
2
1
1
1
1
kidney
49
27
75
13
6
1
1
1
bone element
84
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primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
1
pancreatic beta cell
21
13
23
1
Langerhans cell
48
CD8-positive, alpha-beta T cell
4
33
2
1
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