Correlation and association analyses in microbiome study integrating multiomics in health and disease

Y Xia - Progress in molecular biology and translational …, 2020 - Elsevier
Correlation and association analyses are one of the most widely used statistical methods in
research fields, including microbiome and integrative multiomics studies. Correlation and …

Feature selection methods for big data bioinformatics: A survey from the search perspective

L Wang, Y Wang, Q Chang - Methods, 2016 - Elsevier
This paper surveys main principles of feature selection and their recent applications in big
data bioinformatics. Instead of the commonly used categorization into filter, wrapper, and …

Gene co-expression analysis for functional classification and gene–disease predictions

S Van Dam, U Vosa, A van der Graaf… - Briefings in …, 2018 - academic.oup.com
Gene co-expression networks can be used to associate genes of unknown function with
biological processes, to prioritize candidate disease genes or to discern transcriptional …

Gene regulatory network inference from single-cell data using multivariate information measures

TE Chan, MPH Stumpf, AC Babtie - Cell systems, 2017 - cell.com
While single-cell gene expression experiments present new challenges for data processing,
the cell-to-cell variability observed also reveals statistical relationships that can be used by …

[图书][B] Analyzing neural time series data: theory and practice

MX Cohen - 2014 - books.google.com
A comprehensive guide to the conceptual, mathematical, and implementational aspects of
analyzing electrical brain signals, including data from MEG, EEG, and LFP recordings. This …

Detecting novel associations in large data sets

DN Reshef, YA Reshef, HK Finucane, SR Grossman… - science, 2011 - science.org
Identifying interesting relationships between pairs of variables in large data sets is
increasingly important. Here, we present a measure of dependence for two-variable …

Identifying pathophysiological mechanisms in heart failure with reduced versus preserved ejection fraction

J Tromp, BD Westenbrink, W Ouwerkerk… - Journal of the American …, 2018 - jacc.org
Background: Information on the pathophysiological differences between heart failure with
reduced ejection fraction (HFrEF) versus heart failure with preserved ejection fraction …

Equitability, mutual information, and the maximal information coefficient

JB Kinney, GS Atwal - … of the National Academy of Sciences, 2014 - National Acad Sciences
How should one quantify the strength of association between two random variables without
bias for relationships of a specific form? Despite its conceptual simplicity, this notion of …

Parallel genome-scale loss of function screens in 216 cancer cell lines for the identification of context-specific genetic dependencies

GS Cowley, BA Weir, F Vazquez, P Tamayo, JA Scott… - Scientific data, 2014 - nature.com
Using a genome-scale, lentivirally delivered shRNA library, we performed massively parallel
pooled shRNA screens in 216 cancer cell lines to identify genes that are required for cell …

ARACNe-AP: gene network reverse engineering through adaptive partitioning inference of mutual information

A Lachmann, FM Giorgi, G Lopez, A Califano - Bioinformatics, 2016 - academic.oup.com
The accurate reconstruction of gene regulatory networks from large scale molecular profile
datasets represents one of the grand challenges of Systems Biology. The Algorithm for the …