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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1269
total RNA-seq
1090
ChIP-seq
422
ATAC-seq
352
single cell RNA-seq
198
DNase-seq
87
RNA microarray
74
snATAC-seq
72
WGBS
41
pCHi-C
21
Hi-C
20
RRBS
18
small RNA-seq
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1639
Transcription
1090
DNA binding
698
DNA accessibility
93
DNA methylation
21
3D chromatin structure
Target of assay
794
histone modification
793
histone
413
narrow histone mark
380
broad histone mark
202
control
99
transcription factor
33
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
593
February, 2021
343
August, 2017
340
May, 2020
246
May, 2021
229
October, 2019
227
August, 2021
211
June, 2019
200
May, 2022
168
July, 2018
148
February, 2023
96
July, 2019
85
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
70
May, 2019
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
40
May, 2024
40
November, 2019
37
March, 2020
27
November, 2018
23
October, 2017
22
February, 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
2397
bam
2286
bigWig
1330
tsv
1158
bed narrowPeak
780
fastq
587
bigBed narrowPeak
338
tagAlign
245
bed broadPeak
229
bed bed3+
208
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
33
bed bedMethyl
33
bigBed bedMethyl
14
hic
12
bedpe bed3+
8
csv
6
bed bed3
3
cool
2
hdf5
1
bedpe
1
tagAlign bed3+
Organism
3668
Homo sapiens
Biosample type
2625
tissue
1051
primary cell
596
cell line
394
in vitro differentiated cells
10
stem cell
Organ
851
pancreas
586
connective tissue
490
adipose tissue
421
epithelium
375
liver
335
kidney
326
heart
286
brain
vasculature
164
blood vessel
159
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
25
spleen
22
vein
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
lung
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3069
AMP
324
HPAP
235
T1D
47
KPMP
LungMap
1
ITG
Genome assembly (visualization)
2282
hg19
2268
GRCh38
Lab
2779
AMP-T2D consortium
324
Klaus Kaestner, Upenn
291
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
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:
144
inconsistent ontology term
39
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
organ_slims!
vasculature
award.project!
LungMap
BIOSAMPLE
ASSAY
3676 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
292
71
68
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
1
2
3
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
+ See 170 more…
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
1
CD8-positive, alpha-beta T cell
4
33
2
1
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