[HTML][HTML] Translating cancer genomics into precision medicine with artificial intelligence: applications, challenges and future perspectives

J Xu, P Yang, S Xue, B Sharma, M Sanchez-Martin… - Human genetics, 2019 - Springer
In the field of cancer genomics, the broad availability of genetic information offered by next-
generation sequencing technologies and rapid growth in biomedical publication has led to …

Genes, mutations, and human inherited disease at the dawn of the age of personalized genomics

DN Cooper, JM Chen, EV Ball, K Howells… - Human …, 2010 - Wiley Online Library
The number of reported germline mutations in human nuclear genes, either underlying or
associated with inherited disease, has now exceeded 100,000 in more than 3,700 different …

PMut: a web-based tool for the annotation of pathological variants on proteins, 2017 update

V López-Ferrando, A Gazzo, X De La Cruz… - Nucleic acids …, 2017 - academic.oup.com
We present here a full update of the PMut predictor, active since 2005 and with a large
acceptance in the field of predicting Mendelian pathological mutations. PMut internal engine …

Functional annotations improve the predictive score of human disease‐related mutations in proteins

R Calabrese, E Capriotti, P Fariselli… - Human …, 2009 - Wiley Online Library
Single nucleotide polymorphisms (SNPs) are the simplest and most frequent form of human
DNA variation, also valuable as genetic markers of disease susceptibility. The most …

[HTML][HTML] WS-SNPs&GO: a web server for predicting the deleterious effect of human protein variants using functional annotation

E Capriotti, R Calabrese, P Fariselli, PL Martelli… - BMC genomics, 2013 - Springer
Background SNPs&GO is a method for the prediction of deleterious Single Amino acid
Polymorphisms (SAPs) using protein functional annotation. In this work, we present the web …

[HTML][HTML] The role of balanced training and testing data sets for binary classifiers in bioinformatics

Q Wei, RL Dunbrack Jr - PloS one, 2013 - journals.plos.org
Training and testing of conventional machine learning models on binary classification
problems depend on the proportions of the two outcomes in the relevant data sets. This may …

[HTML][HTML] PON-P2: prediction method for fast and reliable identification of harmful variants

A Niroula, S Urolagin, M Vihinen - PloS one, 2015 - journals.plos.org
More reliable and faster prediction methods are needed to interpret enormous amounts of
data generated by sequencing and genome projects. We have developed a new …

Bioinformatics challenges for personalized medicine

GH Fernald, E Capriotti, R Daneshjou… - …, 2011 - academic.oup.com
Motivation: Widespread availability of low-cost, full genome sequencing will introduce new
challenges for bioinformatics. Results: This review outlines recent developments in …

[HTML][HTML] Collective judgment predicts disease-associated single nucleotide variants

E Capriotti, RB Altman, Y Bromberg - BMC genomics, 2013 - Springer
Background In recent years the number of human genetic variants deposited into the
publicly available databases has been increasing exponentially. The latest version of …

Classification of rare missense substitutions, using risk surfaces, with genetic‐and molecular‐epidemiology applications

SV Tavtigian, GB Byrnes, DE Goldgar… - Human …, 2008 - Wiley Online Library
Many individually rare missense substitutions are encountered during deep resequencing of
candidate susceptibility genes and clinical mutation screening of known susceptibility …