Prediction performance was calculated and was compared with those of a few commonly used programs, GenScan, GeneID and Morgan based on a few criteria. The results show that the program can be practically used as a stand-alone program and a module in a system. For gene prediction of ...
Fig. 1. The architecture of the proposed disease candidate genes prediction method. In the predication phase, first, each time slot or condition expression level of each unlabeled genes are mapped to the closest value that are determined in the second step of learning phase, then, based on the...
36Altmetric Metrics Abstract Sequence-based protein function and structure prediction depends crucially on sequence-search sensitivity and accuracy of the resulting sequence alignments. We present an open-source, general-purpose tool that represents both query and database sequences by profile hidden Markov...
DNA⁃bindingdomaininVOZtranscriptionfactors.TheHMMprofileconstructedbasedonmultiplesequencealignmentofVOZ⁃domaincouldbeusedfornovelVOZgenepredictionandidentification.BasedonthetranscriptomeofSyntrichiacaninervisandtheHMMprofileconstructedfromtheVOZgenesinA.thaliana,P.patensandO.sativa,anovelVOZtranscriptionfactorwas...
This study presents a feature selection-based method for drug response prediction, named Auto-HMM-LMF, to efficiently predict cell line-drug associations. Gene expression profile, copy number alteration, single-nucleotide mutation, tissue type information of the cell line, and drugs’ chemical structu...
To improve tropism prediction accuracy, we developed two novel methods, the extreme gradient boosting based XGBpred and the hidden Markov model based HMMpred. Both XGBpred and HMMpred achieved higher specificities (72.56% and 72.09%) than the state-of-the-art methods Geno2pheno (61.6%) and G...
Burge, C., Karlin, S.: Prediction of complete gene structures in human genomic DNA. Journal of Molecular Biology 268(1), 78–94 (1997) CrossRef Chib, S.: Calculating posterior distributions and modal estimates in Markov mixture models. Journal of Econometrics 75(1), 79–97 (1996) ...
We estimate transition and emission probabilities of the model only based on sequences containing CpG islands without known keys. We use the Baum Welch algorithm, which is a special case of the EM (expectation maximization) algorithm. It makes use of the forward-backward algorithm to compute the...
Introduction to ab initio and evidence-based gene finding Wilson Leung08/2015. Starting Monday M Oct 29 –Back to BLAST and Orthology (readings posted) will focus on the BLAST algorithm, different types and applications of BLAST; in.
Prediction of future stock prices based on historical market data using the power of HMM. Training and testing on Apple stock prices for accurate predictions over a user-defined period. Automated data collection directly from Yahoo Finance using pandas_datareader. Calculation of mean squared error (...