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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1004
total RNA-seq
867
ChIP-seq
206
ATAC-seq
178
DNase-seq
118
single cell RNA-seq
87
RNA microarray
24
pCHi-C
16
small RNA-seq
14
Hi-C
11
WGBS
8
snATAC-seq
4
FAIRE-seq
3
snDrop-seq
2
RRBS
Assay category
1138
Transcription
867
DNA binding
396
DNA accessibility
14
3D chromatin structure
13
DNA methylation
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
185
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
545
February, 2021
279
August, 2017
242
October, 2019
227
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
74
October, 2018
63
July, 2019
48
December, 2017
40
March, 2020
40
November, 2019
38
May, 2021
25
February, 2020
22
October, 2017
20
November, 2018
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
3
December, 2019
2
January, 2018
2
May, 2022
1
August, 2022
Available data
1882
bam
1711
bigWig
1075
tsv
906
bed narrowPeak
561
bigBed narrowPeak
351
fastq
238
tagAlign
211
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
151
txt
64
xls
bed bedMethyl
25
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2534
Homo sapiens
Biosample type
2542
tissue
614
cell line
514
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
545
connective tissue
486
adipose tissue
436
pancreas
320
liver
266
heart
264
brain
251
kidney
158
bone element
132
blood vessel
132
vasculature
121
limb
79
musculature of body
73
artery
56
eye
43
nerve
23
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2538
AMP
4
T1D
Genome assembly (visualization)
1800
GRCh38
1704
hg19
Lab
2400
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, 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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bedMethyl
BIOSAMPLE
ASSAY
2542 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
small RNA-seq
Hi-C
WGBS
snATAC-seq
FAIRE-seq
snDrop-seq
RRBS
tissue
islet of Langerhans
286
71
34
1
4
1
1
1
adipose tissue
382
2
3
1
1
liver
147
145
2
1
1
1
1
3
kidney
49
27
75
13
17
1
6
1
bone element
84
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