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ORCIDJournal of Bioinformatics and Computational Biology, Volume 17
Volume 17, Number 1, February 2019
- Yuriy L. Orlov
, Ralf Hofestädt, Tatiana V. Tatarinova:
Bioinformatics research at BGRS\SB-2018. 1902001:1-1902001:4
- Anastasiya V. Rudik, Vladislav M. Bezhentsev, Alexander V. Dmitriev, Alexey Lagunin, Dmitry Filimonov, Vladimir Poroikov:
Metatox - Web application for generation of metabolic pathways and toxicity estimation. 1940001:1-1940001:14 - Alexey Penenko, Ulyana S. Zubairova, Zhadyra Mukatova, Sergey Nikolaev:
Numerical algorithm for morphogen synthesis region identification with indirect image-type measurement data. 1940002:1-1940002:18 - Anna Sergeevna Batova, Aleksandr Nikolaevich Bugay, Ermuhammad Berdimurodovich Dushanov:
Effect of mutant NMDA receptors on the oscillations in a model of hippocampus. 1940003:1-1940003:15 - Natalia G. Novoselova:
Numerical constructions of optimal feedback in models of chemotherapy of a malignant tumor. 1940004:1-1940004:16
- Wei Zhang, Jia Xu, Yuanyuan Li, Xiufen Zou:
Integrating network topology, gene expression data and GO annotation information for protein complex prediction. 1950001:1-1950001:20 - Youming Lu, Lei Yuan, Xin Chen, Aijun Zhang, Pengqi Zhang, Dongdong Zou:
Systematic analysis and identification of unexpected interactions from the neuroprotein drug interactome in hydrocephalus pharmacological intervention. 1950002:1-1950002:16
- Anna V. Kudryavtseva, Elena N. Lukyanova, Sergey L. Kharitonov, Kirill M. Nyushko, Alexey A. Krasheninnikov, Elena A. Pudova, Zulfiya G. Guvatova, Boris Y. Alekseev, Marina V. Kiseleva, Andrey D. Kaprin, Alexey A. Dmitriev, Anastasiya V. Snezhkina, George S. Krasnov:
Bioinformatic identification of differentially expressed genes associated with prognosis of locally advanced lymph node-positive prostate cancer. 1950003:1-1950003:20
- Chun Fang, Yoshitaka Moriwaki, Aikui Tian, Caihong Li, Kentaro Shimizu:
Identifying short disorder-to-order binding regions in disordered proteins with a deep convolutional neural network method. 1950004:1-1950004:16 - Nguyen-Quoc-Khanh Le, Quang-Thai Ho, Yu-Yen Ou:
Using two-dimensional convolutional neural networks for identifying GTP binding sites in Rab proteins. 1950005:1-1950005:19
- Oxana V. Galzitskaya, Georgii S. Novikov, Nikita V. Dovidchenko, Michail Yu. Lobanov:
Is there codon usage bias for poly-Q stretches in the human proteome? 1950010:1-1950010:10
Volume 17, Number 2, April 2019
- Ashish Runthala, Shibasish Chowdhury:
Refined template selection and combination algorithm significantly improves template-based modeling accuracy. 1950006:1-1950006:21 - Farzad Peyravi, Alimohammad Latif, Seyed Mohammad Moshtaghioun:
Protein tertiary structure prediction using hidden Markov model based on lattice. 1950007:1-1950007:21 - Sanjeev Kumar, Suneeta Agarwal, Ranvijay:
Fast and memory efficient approach for mapping NGS reads to a reference genome. 1950008:1-1950008:17 - Polina Zhornikova, Nina Golyandina, Alexander V. Spirov:
Noise model estimation with application to gene expression. 1950009:1-1950009:20 - Ali Cuvitoglu, Joseph Xu Zhou, Sui Huang, Zerrin Isik:
Predicting drug synergy for precision medicine using network biology and machine learning. 1950012:1-1950012:20 - Yaxing Zhao, Andrew Chi-Hau Sue, Wilson Wen Bin Goh:
Deeper investigation into the utility of functional class scoring in missing protein prediction from proteomics data. 1950013:1-1950013:17
Volume 17, Number 3, June 2019
- Yen-Wei Chu, Yu-Hong Lee:
Selected Papers from the International Workshop on Cancer Bioinformatics and Intelligent Medicine (CBIM2018). 1902002:1-1902002:2
- Chun-Yu Lin, Peiying Ruan, Ruiming Li, Jinn-Moon Yang, Simon See, Jiangning Song, Tatsuya Akutsu:
Deep learning with evolutionary and genomic profiles for identifying cancer subtypes. 1940005:1-1940005:15 - Jung-Yu Lee, Si-Yu Lin, Chun-Yu Lin, Yi-Hsuan Chuang, Sing-Han Huang, Yu-Yao Tseng, Hung-Jung Wang, Jinn-Moon Yang:
Identification of the PCA29 gene signature as a predictor in prostate cancer. 1940006:1-1940006:12 - Teppei Matsubara, Tomoshiro Ochiai, Morihiro Hayashida, Tatsuya Akutsu, Jose C. Nacher:
Convolutional neural network approach to lung cancer classification integrating protein interaction network and gene expression profiles. 1940007:1-1940007:11 - Yoshiaki Sota, Shigeto Seno, Hironori Shigeta, Naoki Osato, Masafumi Shimoda, Shinzaburo Noguchi, Hideo Matsuda:
Improvement of detection performance of fusion genes from RNA-seq data by clustering short reads. 1940008:1-1940008:12
- Daniel Inostroza, Cecilia Hernández, Diego Seco, Gonzalo Navarro, Alvaro Olivera-Nappa:
Cell cycle and protein complex dynamics in discovering signaling pathways. 1950011:1-1950011:21 - Rumen Andonov, Hristo N. Djidjev, Sebastien François, Dominique Lavenier:
Complete assembly of circular and chloroplast genomes based on global optimization. 1950014:1-1950014:23 - Matthew Stephenson, Gerarda A. Darlington, Flavio S. Schenkel, E. James Squires, R. Ayesha Ali:
DSRIG: Incorporating graphical structure in the regularized modeling of SNP data. 1950017:1-1950017:15 - Jamshid Pirgazi, Ali Reza Khanteymoori, Maryam Jalilkhani:
TIGRNCRN: Trustful inference of gene regulatory network using clustering and refining the network. 1950018:1-1950018:26 - Rishika Sen, Losiana Nayak, Rajat K. De:
PyPredT6: A python-based prediction tool for identification of Type VI effector proteins. 1950019:1-1950019:18
Volume 17, Number 4, August 2019
- Shuhei Kimura, Masato Tokuhisa, Mariko Okada:
Inference of genetic networks using random forests: Assigning different weights for gene expression data. 1950015:1-1950015:21 - P. V. Sunil Kumar, G. Gopakumar:
Inferring disease and pathway associations of long non-coding RNAs using heterogeneous information network model. 1950020:1-1950020:18 - Qiang Yu, Xiang Zhao, Hongwei Huo:
A new algorithm for DNA motif discovery using multiple sample sequence sets. 1950021:1-1950021:19 - Huiqing Wang, Chun Li, Jianhui Zhang, Jingjing Wang, Yue Ma, Yuanyuan Lian:
A new LSTM-based gene expression prediction model: L-GEPM. 1950022:1-1950022:19 - Luowen Liu, Jing Liu:
A sparse and decomposed particle swarm optimization for inferring gene regulatory networks based on fuzzy cognitive maps. 1950023:1-1950023:25 - Ting-Hua Huang, Xiali Huang, Bomei Shi, Min Yao:
GEREDB: Gene expression regulation database curated by mining abstracts from literature. 1950024:1-1950024:12 - Sovan Saha, Abhimanyu Prasad, Piyali Chatterjee, Subhadip Basu, Mita Nasipuri:
Protein function prediction from dynamic protein interaction network using gene expression data. 1950025:1-1950025:15 - Natalia Rubanova, Nadya Morozova:
Centrality and the shortest path approach in the human interactome. 1950027:1-1950027:13 - Md. Ashad Alam, Osamu Komori, Hong-Wen Deng, Vince D. Calhoun, Yu-Ping Wang:
Robust kernel canonical correlation analysis to detect gene-gene co-associations: A case study in genetics. 1950028:1-1950028:23 - Fang Yuan, Gan Liu, Xiwen Yang, Shunfang Wang, Xueren Wang:
Prediction of oxidoreductase subfamily classes based on RFE-SND-CC-PSSM and machine learning methods. 1950029:1-1950029:25
Volume 17, Number 5, October 2019
- Elisabetta De Maria:
Introduction to JBCB Special Issue on BIOINFORMATICS 2019. 1902003:1-1902003:2
- Rick Gelhausen, Sebastian Will, Ivo L. Hofacker, Rolf Backofen, Martin Raden:
IntaRNAhelix-composing RNA-RNA interactions from stable inter-molecular helices boosts bacterial sRNA target prediction. 1940009:1-1940009:16 - Farhad Maleki, Katie L. Ovens, Daniel J. Hogan, Elham Rezaei, Alan M. Rosenberg, Anthony J. Kusalik:
Measuring consistency among gene set analysis methods: A systematic study. 1940010:1-1940010:18 - Yoshihiro Shibuya, Matteo Comin:
Indexing k-mers in linear space for quality value compression. 1940011:1-1940011:15
- Pietro Bongini, Neri Niccolai, Monica Bianchini:
Glycine-induced formation and druggability score prediction of protein surface pockets. 1950026:1-1950026:18 - Qiangrong Jiang, Guang Qiu:
Graph kernels combined with the neural network on protein classification. 1950030:1-1950030:11 - Abdelhakim El Fatmi, Ali Bekri, Said Benhlima:
RNAknot: A new algorithm for RNA secondary structure prediction based on genetic algorithm and GRASP method. 1950031:1-1950031:19 - Ting-Hua Huang, Xiali Huang, Min Yao:
Min3: Predict microRNA target gene using an improved binding-site representation method and support vector machine. 1950032:1-1950032:19 - Vishan Kumar Gupta, Prashant Singh Rana:
Toxicity prediction of small drug molecules of androgen receptor using multilevel ensemble model. 1950033:1-1950033:26
Volume 17, Number 6, December 2019
- Qin Ding, Oliver Eulenstein, Hisham Al-Mubaid:
Foreword: Special Issue for the 2019 International Conference on Bioinformatics and Computational Biology (BICOB-2019). 1902004:1-1902004:2
- Yuan Liu, Yongchao Ma, Evan Salsman, Frank A. Manthey, Elias M. Elias, Xuehui Li, Changhui Yan:
An enrichment method for mapping ambiguous reads to the reference genome for NGS analysis. 1940012:1-1940012:13 - Ahmed Bin Zaman, Amarda Shehu:
Building maps of protein structure spaces in template-free protein structure prediction. 1940013:1-1940013:17 - Kazi Lutful Kabir, Nasrin Akhter, Amarda Shehu:
From molecular energy landscapes to equilibrium dynamics via landscape analysis and markov state models. 1940014:1-1940014:21 - Chun Fang, Yoshitaka Moriwaki, Caihong Li, Kentaro Shimizu:
MoRFPred_en: Sequence-based prediction of MoRFs using an ensemble learning strategy. 1940015:1-1940015:15
- Abolfazl Bahrami, Ali Najafi, Mohammadreza Hashemi, Seyed Reza Miraie-Ashtiani:
PSSP: Protein splice site prediction algorithm using Bayesian approach. 1950034:1-1950034:18 - Huiqing Wang, Yuanyuan Lian, Chun Li, Yue Ma, Zhiliang Yan, Chunlin Dong:
SIN-KNO: A method of gene regulatory network inference using single-cell transcription and gene knockout data. 1950035:1-1950035:28 - Tatsuya Sekiguchi, Hiroyuki Hamada, Masahiro Okamoto:
WinBEST-KIT: Biochemical reaction simulator that can define and customize algebraic equations and events as GUI components. 1950036:1-1950036:22 - Lei Gao, Cong Wu, Lin Liu:
AUSPP: A universal short-read pre-processing package. 1950037:1-1950037:11 - Peng Li, Maozu Guo, Bo Sun:
Integration of multi-omics data to mine cancer-related gene modules. 1950038:1-1950038:24 - Bifang He, Jian Huang, Heng Chen:
PVsiRNAPred: Prediction of plant exclusive virus-derived small interfering RNAs by deep convolutional neural network. 1950039:1-1950039:11
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