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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1388
ChIP-seq
1125
total RNA-seq
261
ATAC-seq
180
single cell RNA-seq
177
DNase-seq
87
RNA microarray
28
WGBS
28
snATAC-seq
27
pCHi-C
19
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1388
DNA binding
1323
Transcription
470
DNA accessibility
39
DNA methylation
19
3D chromatin structure
1
DNA sequencing
Target of assay
663
histone modification
662
histone
455
transcription factor
340
narrow histone mark
322
broad histone mark
270
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
641
February, 2021
397
November, 2017
284
August, 2017
273
August, 2021
250
October, 2019
194
May, 2020
160
June, 2019
120
July, 2018
115
May, 2019
87
November, 2018
80
April, 2019
77
July, 2019
74
October, 2018
70
February, 2023
66
May, 2022
61
May, 2021
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
40
May, 2024
35
December, 2018
30
January, 2019
24
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
4
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2486
bam
2291
bigWig
1358
bed narrowPeak
1190
tsv
913
bigBed narrowPeak
804
fastq
269
bed broadPeak
258
tagAlign
232
bigBed broadPeak
205
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
bedpe
1
hdf5
tagAlign bed3+
1
vcf
Organism
3368
Homo sapiens
Biosample type
2719
tissue
1083
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
762
liver
596
pancreas
547
connective tissue
488
adipose tissue
379
heart
318
kidney
264
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
94
epithelium
82
musculature of body
61
blood
61
bodily fluid
eye
43
nerve
25
spleen
20
lung
18
ureter
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3273
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2319
GRCh38
2253
hg19
Lab
2983
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
37
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
183
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
files.file_type!
bedpe
tagAlign bed3+
organ_slims!
eye
BIOSAMPLE
ASSAY
3381 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
69
278
67
6
1
7
2
1
4
1
adipose tissue
2
382
3
3
1
liver
145
167
20
1
2
3
1
1
1
1
kidney
27
49
75
64
13
6
1
1
1
bone element
84
+ See 174 more…
cell line
HepG2
378
14
1
1
2
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 14 more…
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