Topological data analysis (TDA) of U-BIOPRED paediatric peripheral blood gene expression identified asthma phenotypes characterised by alternative splicing of glucocorticoid receptor (GR) mRNA

2018 ◽  
Author(s):  
James P. R. Schofield ◽  
Jeanette Bigler ◽  
Michael Boedigheimer ◽  
Karen Affleck ◽  
Adam Taylor ◽  
...  
Keyword(s):  
Gene Expression ◽  
Data Analysis ◽  
Alternative Splicing ◽  
Glucocorticoid Receptor ◽  
Peripheral Blood ◽  
Topological Data Analysis ◽  
Blood Gene Expression ◽  
Asthma Phenotypes ◽  
Peripheral Blood Gene Expression ◽  
Topological Data

scholarly journals Morse-clustering of a Topological Data Analysis Network Identifies Phenotypes of Asthma Based on Blood Gene Expression Profiles

2019 ◽  
Author(s):  
James P R Schofield ◽  
Fabio Strazzeri ◽  
Jeannette Bigler ◽  
Michael Boedigheimer ◽  
Ian M Adcock ◽  
...  
Keyword(s):  
Gene Expression ◽  
Data Analysis ◽  
Glucocorticoid Receptor ◽  
Network Model ◽  
Clustering Algorithm ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Topological Data Analysis ◽  
Molecular Phenotypes ◽  
Topological Data

AbstractStratified medicine requires discretisation of disease populations for targeted treatments. We have developed and applied a discrete Morse theory clustering algorithm to a Topological Data Analysis (TDA) network model of 498 gene expression profiles of peripheral blood from asthma and healthy participants. The Morse clustering algorithm defined nine clusters, BC1-9, representing molecular phenotypes with discrete phenotypes including Type-1, 2 & 17 cytokine inflammatory pathways. The TDA network model and clusters were also characterised by activity of glucocorticoid receptor signalling associated with different expression profiles of glucocorticoid receptor (GR), according to microarray probesets targeted to the start or end of the GR mRNA’s 3’ UTR; suggesting differential GR mRNA processing as a possible driver of asthma phenotypes including steroid insensitivity.

scholarly journals Peripheral blood gene expression profiling in rheumatoid arthritis

2005 ◽  
Vol 6 (5) ◽  
pp. 388-397 ◽  
Author(s):  
F M Batliwalla ◽  
E C Baechler ◽  
X Xiao ◽  
W Li ◽  
S Balasubramanian ◽  
...  
Keyword(s):  
Rheumatoid Arthritis ◽  
Gene Expression ◽  
Gene Expression Profiling ◽  
Peripheral Blood ◽  
Expression Profiling ◽  
Blood Gene Expression ◽  
Peripheral Blood Gene Expression

P2-249: Predicting Cognitive Decline and Brain Amyloidosis using Cognitive and Peripheral Blood Gene Expression Measures

2016 ◽  
Vol 12 ◽  
pp. P720-P721
Author(s):  
Kristy S. Hwang ◽  
Nicole Chow ◽  
Naira Goukasian ◽  
Kwangsik Nho ◽  
Andy J. Saykin ◽  
...  
Keyword(s):  
Gene Expression ◽  
Cognitive Decline ◽  
Peripheral Blood ◽  
Blood Gene Expression ◽  
Peripheral Blood Gene Expression
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