Needles in stacks of needles: finding disease-causal variants in a wealth of genomic data
GM Cooper, J Shendure - Nature Reviews Genetics, 2011 - nature.com
Genome and exome sequencing yield extensive catalogues of human genetic variation.
However, pinpointing the few phenotypically causal variants among the many variants …
However, pinpointing the few phenotypically causal variants among the many variants …
Predicting the effects of amino acid substitutions on protein function
PC Ng, S Henikoff - Annu. Rev. Genomics Hum. Genet., 2006 - annualreviews.org
Nonsynonymous single nucleotide polymorphisms (nsSNPs) are coding variants that
introduce amino acid changes in their corresponding proteins. Because nsSNPs can affect …
introduce amino acid changes in their corresponding proteins. Because nsSNPs can affect …
Predicting the functional, molecular, and phenotypic consequences of amino acid substitutions using hidden Markov models
The rate at which nonsynonymous single nucleotide polymorphisms (ns SNP s) are being
identified in the human genome is increasing dramatically owing to advances in whole …
identified in the human genome is increasing dramatically owing to advances in whole …
[HTML][HTML] Improving the assessment of the outcome of nonsynonymous SNVs with a consensus deleteriousness score, Condel
A González-Pérez, N López-Bigas - The American Journal of Human …, 2011 - cell.com
Several large ongoing initiatives that profit from next-generation sequencing technologies
have driven—and in coming years will continue to drive—the emergence of long catalogs of …
have driven—and in coming years will continue to drive—the emergence of long catalogs of …
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 …
DNA variation, also valuable as genetic markers of disease susceptibility. The most …
SNAP: predict effect of non-synonymous polymorphisms on function
Y Bromberg, B Rost - Nucleic acids research, 2007 - academic.oup.com
Many genetic variations are single nucleotide polymorphisms (SNPs). Non-synonymous
SNPs are 'neutral'if the resulting point-mutated protein is not functionally discernible from the …
SNPs are 'neutral'if the resulting point-mutated protein is not functionally discernible from the …
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 …
problems depend on the proportions of the two outcomes in the relevant data sets. This may …
Mutations in FGF17, IL17RD, DUSP6, SPRY4, and FLRT3 are identified in individuals with congenital hypogonadotropic hypogonadism
Congenital hypogonadotropic hypogonadism (CHH) and its anosmia-associated form
(Kallmann syndrome [KS]) are genetically heterogeneous. Among the> 15 genes implicated …
(Kallmann syndrome [KS]) are genetically heterogeneous. Among the> 15 genes implicated …
Biophysics of protein evolution and evolutionary protein biophysics
The study of molecular evolution at the level of protein-coding genes often entails comparing
large datasets of sequences to infer their evolutionary relationships. Despite the importance …
large datasets of sequences to infer their evolutionary relationships. Despite the importance …
Rare versus common variants in pharmacogenetics: SLCO1B1 variation and methotrexate disposition
Methotrexate is used to treat autoimmune diseases and malignancies, including acute
lymphoblastic leukemia (ALL). Inter-individual variation in clearance of methotrexate results …
lymphoblastic leukemia (ALL). Inter-individual variation in clearance of methotrexate results …