A comparison and assessment of computational method for identifying recombination hotspots in Saccharomyces cerevisiae

H Yang, W Yang, FY Dao, H Lv, H Ding… - Briefings in …, 2020 - academic.oup.com
Meiotic recombination is one of the most important driving forces of biological evolution,
which is initiated by double-strand DNA breaks. Recombination has important roles in …

SFPEL-LPI: Sequence-based feature projection ensemble learning for predicting LncRNA-protein interactions

W Zhang, X Yue, G Tang, W Wu, F Huang… - PLoS computational …, 2018 - journals.plos.org
LncRNA-protein interactions play important roles in post-transcriptional gene regulation,
poly-adenylation, splicing and translation. Identification of lncRNA-protein interactions helps …

[HTML][HTML] iRSpot-Pse6NC: Identifying recombination spots in Saccharomyces cerevisiae by incorporating hexamer composition into general PseKNC

H Yang, WR Qiu, G Liu, FB Guo, W Chen… - … journal of biological …, 2018 - ncbi.nlm.nih.gov
Meiotic recombination caused by meiotic double-strand DNA breaks. In some regions the
frequency of DNA recombination is relatively higher, while in other regions the frequency is …

A brief review on software tools in generating Chou's pseudo-factor representations for all types of biological sequences

W Zhao, L Wang, TX Zhang, ZN Zhao… - Protein and Peptide …, 2018 - ingentaconnect.com
Background: In the post-genome age, it is more urgent to understand the functions of genes
and proteins. Since experimental methods are usually costly and time consuming …

iRSpot-SPI: Deep learning-based recombination spots prediction by incorporating secondary sequence information coupled with physio-chemical properties via …

ZU Khan, F Ali, IA Khan, Y Hussain, D Pi - Chemometrics and Intelligent …, 2019 - Elsevier
Meiotic recombination plays an important role in the process of genetic diversity
generation.“Hotspots” are regions that show a higher rate of meiotic recombination, while …

iNuc-ext-PseTNC: an efficient ensemble model for identification of nucleosome positioning by extending the concept of Chou's PseAAC to pseudo-tri-nucleotide …

M Tahir, M Hayat, SA Khan - Molecular Genetics and Genomics, 2019 - Springer
Nucleosome is a central element of eukaryotic chromatin, which composes of histone
proteins and DNA molecules. It performs vital roles in many eukaryotic intra-nuclear …

Vgas: a viral genome annotation system

KY Zhang, YZ Gao, MZ Du, S Liu, C Dong… - Frontiers in …, 2019 - frontiersin.org
The in-depth study of viral genomes is of great help in many aspects, especially in the
treatment of human diseases caused by viral infections. With the rapid accumulation of viral …

iRSpot-ADPM: Identify recombination spots by incorporating the associated dinucleotide product model into Chou's pseudo components

L Zhang, L Kong - Journal of Theoretical Biology, 2018 - Elsevier
Gene recombination is a key process to produce hereditary differences. Recombination spot
identification plays an important role in revealing genome evolution and promoting DNA …

[HTML][HTML] iRSpot-SF: Prediction of recombination hotspots by incorporating sequence based features into Chou's Pseudo components

MA Al Maruf, S Shatabda - Genomics, 2019 - Elsevier
Recombination hotspots in a genome are unevenly distributed. Hotspots are regions in a
genome that show higher rates of meiotic recombinations. Computational methods for …

Accurate prediction of human essential genes using only nucleotide composition and association information

FB Guo, C Dong, HL Hua, S Liu, H Luo… - …, 2017 - academic.oup.com
Motivation Previously constructed classifiers in predicting eukaryotic essential genes
integrated a variety of features including experimental ones. If we can obtain satisfactory …