Schema theory for gene expression programming [PDF]
, 2014 This thesis was submitted for the degree of Doctor of Philosophy and awarded by Brunel University.This thesis studied a new variant of Evolutionary Algorithms called Gene Expression Programming.
Huang, Zhengwen
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Benchmarker: An Unbiased, Association-Data-Driven Strategy to Evaluate Gene Prioritization Algorithms [PDF]
The American Journal of Human Genetics, 2018 Genome-wide association studies (GWAS) are valuable for understanding human biology, but associated loci typically contain multiple associated variants and genes. Thus, algorithms that prioritize likely causal genes and variants for a given phenotype can provide biological interpretations of association data.
Fine, Rebecca S. +4 more
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From knockouts to networks: establishing direct cause-effect relationships through graph analysis. [PDF]
PLoS ONE, 2010 BACKGROUND: Reverse-engineering gene networks from expression profiles is a difficult problem for which a multitude of techniques have been developed over the last decade.
Andrea Pinna +3 more
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A comparison and evaluation of five biclustering algorithms by quantifying goodness of biclusters for gene expression data [PDF]
BioData Mining, 2012 Abstract Background Several biclustering algorithms have been proposed to identify biclusters, in which genes share similar expression patterns across a number of conditions. However, different algorithms would yield different biclusters and further lead to distinct conclusions. Therefore, some testing and comparisons
Li Li +5 more
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Detecting Cooperativity between Transcription Factors Based on Functional Coherence and Similarity of Their Target Gene Sets. [PDF]
PLoS ONE, 2016 In eukaryotic cells, transcriptional regulation of gene expression is usually achieved by cooperative transcription factors (TFs). Therefore, knowing cooperative TFs is the first step toward uncovering the molecular mechanisms of gene expression ...
Wei-Sheng Wu, Fu-Jou Lai
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Frontiers in Neuroscience, 2022 An IA is an abnormal swelling of cerebral vessels, and a subset of these IAs can rupture causing aneurysmal subarachnoid hemorrhage (aSAH), often resulting in death or severe disability.
Qingqing Li +9 more
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Methods for evaluating clustering algorithms for gene expression data using a reference set of functional classes [PDF]
BMC Bioinformatics, 2006 A cluster analysis is the most commonly performed procedure (often regarded as a first step) on a set of gene expression profiles. In most cases, a post hoc analysis is done to see if the genes in the same clusters can be functionally correlated. While past successes of such analyses have often been reported in a number of microarray studies (most of ...
Datta Somnath, Datta Susmita
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Edge-weighting of gene expression graphs [PDF]
, 2009 In recent years, considerable research efforts have been directed to micro-array technologies and their role in providing simultaneous information on expression profiles for thousands of genes.
Kerr, Gráinne +8 more
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Synstable Fusion: A Network-Based Algorithm for Estimating Driver Genes in Fusion Structures
Molecules, 2018 Gene fusion structure is a class of common somatic mutational events in cancer genomes, which are often formed by chromosomal mutations. Identifying the driver gene(s) in a fusion structure is important for many downstream analyses and it contributes to ...
Mingzhe Xu +5 more
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Comparison of algorithms for the analysis of Affymetrix microarray data as evaluated by co-expression of genes in known operons [PDF]
Nucleic Acids Research, 2006 Oligonucleotide microarrays are an informative tool to elucidate gene regulatory networks. In order for gene expression levels to be comparable across microarrays, normalization procedures have to be invoked. A large number of methods have been described to correct for systematic biases in microarray experiments.
Harr, Bettina, Schlötterer, Christian
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