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Schema
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
454
ATAC-seq
359
single cell RNA-seq
209
DNase-seq
87
RNA microarray
84
snATAC-seq
74
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
1655
Transcription
1186
DNA binding
752
DNA accessibility
96
DNA methylation
26
3D chromatin structure
Target of assay
865
histone modification
864
histone
439
narrow histone mark
425
broad histone mark
222
control
104
transcription factor
38
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
586
February, 2021
343
August, 2017
340
May, 2020
276
October, 2019
246
May, 2021
233
August, 2021
218
June, 2019
200
May, 2022
178
February, 2023
168
July, 2018
120
May, 2019
108
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
72
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
41
March, 2020
40
May, 2024
40
November, 2019
26
November, 2018
25
February, 2020
23
October, 2017
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
2516
bam
2385
bigWig
1346
tsv
1279
bed narrowPeak
786
fastq
670
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
242
bed bed3+
225
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
35
bed bedMethyl
35
bigBed bedMethyl
17
hic
14
bedpe bed3+
csv
bed bed3
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3842
Homo sapiens
Biosample type
2766
tissue
1085
primary cell
658
cell line
389
in vitro differentiated cells
10
stem cell
Organ
851
pancreas
585
connective tissue
490
adipose tissue
421
epithelium
374
liver
330
kidney
326
heart
285
brain
170
vasculature
164
blood vessel
155
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
25
spleen
22
vein
20
lung
18
ureter
12
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
3225
AMP
324
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2394
GRCh38
2377
hg19
Lab
2935
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
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
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!
CRISPR genome editing followed by DNA sequencing
files.file_type!
bed bed3
csv
BIOSAMPLE
ASSAY
3851 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
2
3
1
1
1
1
kidney
49
27
75
59
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
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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