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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1325
ChIP-seq
1143
total RNA-seq
281
ATAC-seq
174
single cell RNA-seq
144
DNase-seq
87
RNA microarray
31
pCHi-C
28
snATAC-seq
27
WGBS
16
Hi-C
16
small RNA-seq
11
RRBS
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
1335
Transcription
1325
DNA binding
457
DNA accessibility
38
DNA methylation
16
3D chromatin structure
1
DNA sequencing
Target of assay
617
histone modification
616
histone
455
transcription factor
328
narrow histone mark
288
broad histone mark
248
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
other context
5
other post-translational modification
Date released
635
February, 2021
397
November, 2017
284
August, 2017
273
August, 2021
203
October, 2019
194
May, 2020
131
June, 2019
120
July, 2018
108
May, 2019
101
February, 2023
87
November, 2018
80
April, 2019
74
October, 2018
72
July, 2019
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
23
October, 2017
22
February, 2020
19
April, 2020
15
May, 2023
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2375
bam
2203
bigWig
1296
bed narrowPeak
1188
tsv
832
bigBed narrowPeak
804
fastq
258
tagAlign
236
bed broadPeak
199
bigBed broadPeak
172
bed bed3+
158
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3294
Homo sapiens
Biosample type
2651
tissue
1088
primary cell
656
cell line
394
in vitro differentiated cells
10
stem cell
Organ
762
liver
587
pancreas
547
connective tissue
488
adipose tissue
379
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
limb
88
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
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
3199
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2227
GRCh38
2189
hg19
Lab
2918
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
19
Xin Sun, UCSD
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:
176
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
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
organ_slims!
limb
BIOSAMPLE
ASSAY
3307 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
snATAC-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
...and 3 more
tissue
islet of Langerhans
70
298
68
1
4
7
3
1
1
adipose tissue
2
382
3
1
3
liver
145
167
20
1
2
1
3
1
1
1
kidney
27
49
75
64
13
6
1
1
1
bone element
84
+ See 163 more…
cell line
HepG2
378
14
1
2
1
2
2
EndoC_BH1
15
33
19
1
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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