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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1284
total RNA-seq
1146
ChIP-seq
460
ATAC-seq
361
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
1663
Transcription
1146
DNA binding
758
DNA accessibility
26
3D chromatin structure
22
DNA methylation
Target of assay
830
histone modification
829
histone
424
narrow histone mark
405
broad histone mark
222
control
99
transcription factor
33
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
587
February, 2021
340
May, 2020
334
August, 2017
276
October, 2019
246
May, 2021
233
August, 2021
218
June, 2019
183
February, 2023
168
July, 2018
159
May, 2022
120
May, 2019
96
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
41
March, 2020
40
November, 2019
25
February, 2020
23
October, 2017
21
November, 2018
19
April, 2020
16
January, 2021
15
May, 2023
11
September, 2017
10
November, 2020
8
December, 2019
7
August, 2020
7
December, 2018
7
January, 2019
5
March, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2499
bam
2329
bigWig
1340
tsv
1239
bed narrowPeak
770
fastq
670
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
242
bed bed3+
225
bigBed broadPeak
157
txt
112
zippedFastqFolder
64
xls
19
bed bedMethyl
19
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3742
Homo sapiens
Biosample type
2710
tissue
1041
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
800
pancreas
580
connective tissue
484
adipose tissue
374
epithelium
371
liver
335
kidney
286
brain
278
heart
168
vasculature
162
blood vessel
159
bone element
121
limb
95
musculature of body
75
artery
61
eye
43
nerve
23
spleen
22
vein
20
lung
18
ureter
16
skeleton
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
3172
AMP
277
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2383
hg19
2339
GRCh38
Lab
2922
AMP-T2D consortium
291
Kyle Gaulton, UCSD
277
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
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
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
145
inconsistent ontology term
40
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
BIOSAMPLE
ASSAY
3751 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-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
298
71
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
1
liver
167
145
20
1
2
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
+ See 176 more…
primary cell
monocyte
54
85
15
1
1
Langerhans cell
85
48
pancreatic alpha cell
52
13
35
12
1
pancreatic beta cell
21
13
23
12
1
CD8-positive, alpha-beta T cell
4
33
2
1
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