Genome-wide prediction
Sparse Convolutional Neural Networks for Genome-Wide Prediction
... Genome-wide prediction (GWP) has become the state-of-the art method in arti fi cial ...outstanding prediction properties on complex structured data, but their use in GWP is nevertheless rare ...
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Genome wide prediction of transcription factor binding sites using an integrated model
... TF at a genomic locus. This is captured by the HMM and integrated with the chromatin signature to pinpoint the binding sites of a TF. Recently, several approaches have been proposed to pre- dict TFBSs in mammalian ...
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Genetic Variance Partitioning and Genome-Wide Prediction with Allele Dosage Information in Autotetraploid Potato
... Prediction accuracy Many studies use random cross-validation to assess the accu- racy of genome-wide prediction. However, in the context of a pedigreed breeding population, this approach leads ...
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Genome-wide prediction methods for detecting genetic effects of donor chromosome segments in introgression populations
... Application to experimental data sets We applied the BLUP and RMLV analyses to two exper- imental data sets to derive guidelines for the application of genome-wide prediction methods to introgression ...
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DarkHorse: a method for genome wide prediction of horizontal gene transfer
... comm en t re v ie w s re ports refer e e d re sear chdeposited research interacti o ns inf o rmation established facts. It is, therefore, somewhat surprising that currently available methods do not generally take ...
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Genome-Wide Prediction of Polycomb/Trithorax Response Elements in Drosophila melanogaster
... Drosophila genome, but only very few have been iden- consensus sequence helpful for the identification of the tified due to the lack of a defining consensus se- many other PRE/TREs in the Drosophila ...for ...
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Genome-wide prediction of developmental enhancers and analysis of evolutionary plasticity in Drosophila
... a genome-wide computational approach for searching Drosophila embryonic ...enhancer prediction and is based on the scoring algorithm which has been implemented in jPREdictor ...have prediction ...
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Genome wide prediction and identification of cis natural antisense transcripts in Arabidopsis thaliana
... This hypothesis predicts that we would expect to find more siRNAs associated with trans-antisense transcripts. For most NAT pairs with associated MPSS data for both tran- scripts, the expression of sense and antisense ...
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Genome-Wide Prediction and Validation of Peptides That Bind Human Prosurvival Bcl-2 Proteins
... Programmed cell death is regulated by interactions between pro-apoptotic and prosurvival members of the Bcl-2 family. Pro-apoptotic family members contain a weakly conserved BH3 motif that can adopt an alpha-helical ...
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Genome-Wide Prediction of Traits with Different Genetic Architecture Through Efficient Variable Selection
... We conclude that the breakdown behavior of the variable selection methods with respect to recovering the true model was mainly dominated by dimensionality. Thus, we can use marker effects to learn about genetic trait ...
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Genome wide prediction of HNF4α functional binding sites by the use of local and global sequence context
... Here, we report a computational approach based on a novel machine learning technique, which enabled the identification of genome-wide TFBSs. This method was applied to search for HNF4α gene targets. A ...
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Genome-wide prediction of breeding values and mapping of quantitative trait loci in stratified and admixed populations
... W HITTAKER 2008; F RIDLEY 2009; H E and L IN 2011). A TWELL et al. (2010) in a GWAS of more than 100 phenotypes in inbred lines of Arabidopsis thaliana showed that GWAS yields unambiguous results for monogenic (or ...
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Genome-wide prediction and analysis of human tissue-selective genes using microarray expression data
... time-consuming. High-throughput technologies, such as Expressed Sequence Tag (EST) sequencing and DNA microarrays, have the capacity to perform genome-wide analysis with high efficiency. The DNA microarray ...
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A Motif Co-Occurrence Approach for Genome-Wide Prediction of Transcription-Factor-Binding Sites in Escherichia coli
... Genome-wide mRNA expression analysis using Affymetrix GeneChip oligonucleotide arrays was performed essentially as described previously. Briefly, to enrich for mRNA, reverse tran- scriptase and primers ...
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Genome-wide Protein-chemical Interaction Prediction
... Global prediction [22, 30, 47] utilizes samples that represent protein-chemical interaction ...of genome-wide screening, this approach becomes less attractive since the probability is low that a ...
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Genome-Wide Regression and Prediction with the BGLR Statistical Package
... example, phenotypes were standardized to a unit sample var- iance and the estimated residual variance was 0.53, suggest- ing that the model explained 47% of the phenotypic variance. Figure 3, top left, gives the absolute ...
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Psoriasis prediction from genome-wide SNP profiles
... through genome-wide association studies ...accuracy. Prediction of genetic risk will be increasingly useful in diagnosis, treatment, and prognosis of complex ...
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A Genome-Wide Gene Function Prediction Resource for Drosophila melanogaster
... prioritized prediction results ...our prediction model relative to independent large-scale RNAi results that were not used in training our computational ...
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A Combined Approach for Genome Wide Protein Function Annotation/Prediction
... In this section, we compare our method with other techniques that also integrate multiple sources of infor- mation for protein annotation. The first technique we compare with is presented by S. Jaeger ’s et al. [32]. ...
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A Combined Approach for Genome Wide Protein Function Annotation/Prediction
... In this section, we compare our method with other techniques that also integrate multiple sources of infor- mation for protein annotation. The first technique we compare with is presented by S. Jaeger ’s et al. [32]. ...
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