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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
203
total RNA-seq
154
ChIP-seq
109
ATAC-seq
105
single cell RNA-seq
82
snATAC-seq
17
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
Assay category
308
Transcription
191
DNA accessibility
154
DNA binding
3D chromatin structure
Target of assay
134
histone
134
histone modification
74
broad histone mark
60
narrow histone mark
12
transcription factor
8
control
5
RNA binding protein
Date released
235
May, 2021
127
August, 2021
78
May, 2022
62
February, 2023
45
May, 2020
40
September, 2020
39
February, 2021
19
April, 2020
16
January, 2021
14
May, 2023
Available data
220
bigWig
204
bam
196
bed narrowPeak
124
fastq
96
tsv
84
tagAlign
73
zippedFastqFolder
64
xls
63
txt
2
bed bed3+
Organism
674
Homo sapiens
Biosample type
411
primary cell
212
tissue
47
in vitro differentiated cells
5
cell line
Organ
200
pancreas
epithelium
141
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
248
AMP
236
T1D
172
HPAP
19
LungMap
Genome assembly (visualization)
255
GRCh38
238
hg19
Lab
3525
AMP-T2D consortium
343
Kyle Gaulton, UCSD
172
Klaus Kaestner, Upenn
141
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
35
Bing Ren, UCSD
19
Xin Sun, UCSD
7
Struan F.A. Grant, CHOP
4
Anna Gloyn, Oxford
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
27
audit script error
5
inconsistent ontology term
assay_slims!
3D chromatin structure
organ_slims!
epithelium
BIOSAMPLE
ASSAY
675 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
primary cell
monocyte
53
84
1
Langerhans cell
85
48
exocrine cell
39
CD8-positive, alpha-beta T cell
4
33
1
peripheral blood mononuclear cell
8
+ See 33 more…
tissue
kidney
49
75
11
6
islet of Langerhans
11
29
6
lung
9
10
pancreas
1
4
thymus
1
in vitro differentiated cells
embryonic stem cell
5
37
5
cell line
EndoC_BH1
3
2
See all biosamples
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