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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
857
ChIP-seq
260
ATAC-seq
174
single cell RNA-seq
169
DNase-seq
87
RNA microarray
28
snATAC-seq
pCHi-C
21
WGBS
16
Hi-C
16
small RNA-seq
11
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1227
Transcription
857
DNA binding
460
DNA accessibility
32
DNA methylation
16
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
184
control
82
transcription factor
23
RNA binding protein
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
238
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
November, 2019
39
May, 2021
November, 2018
25
February, 2020
23
October, 2017
20
March, 2020
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1881
bam
1709
bigWig
1056
tsv
927
bed narrowPeak
544
bigBed narrowPeak
351
fastq
238
tagAlign
204
bed broadPeak
196
bed bed3+
167
bigBed broadPeak
157
txt
64
xls
19
bed bedMethyl
19
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2677
Homo sapiens
Biosample type
2686
tissue
1070
primary cell
595
cell line
389
in vitro differentiated cells
6
stem cell
Organ
545
connective tissue
497
pancreas
486
adipose tissue
353
liver
299
kidney
270
heart
261
brain
158
bone element
132
blood vessel
132
vasculature
122
limb
81
musculature of body
73
artery
52
eye
43
nerve
19
lung
18
ureter
16
skeleton
15
epithelium
15
spleen
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
1
spinal cord
Project
2590
AMP
47
KPMP
30
T1D
19
LungMap
Genome assembly (visualization)
1797
GRCh38
1738
hg19
Lab
2375
AMP-T2D consortium
142
Katalin Susztak, Upenn
51
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
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:
89
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
month_released!
November, 2018
assay_title!
pCHi-C
BIOSAMPLE
ASSAY
2686 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
298
71
68
1
7
3
1
4
1
adipose tissue
382
2
3
3
liver
167
141
20
1
3
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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