E-Pub Articles Ahead of Print ::: Current Bioinformatics

ISSN: 2212-392X (Online)
ISSN: 1574-8936 (Print)


Volume 12, 6 Issues, 2017


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Current Bioinformatics

This journal supports open access

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Editor-in-Chief:
Yi-Ping Phoebe Chen
Department of Computer Science and Information Technology
La Trobe University
Melbourne
Australia


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Articles Ahead of Print

Profiling of Heat-Responsive microRNAs in Creeping Bentgrass (Agrostis stolonifera L.)


Haizhen Liu, Jianqin Li, Yongkun Chen, Yan-rong Xu and Jichen Xu


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Determining the Influence of Class Imbalance for the Triage of Biomedical Documents


Jorge Fdez-Glez, David Ruano-Ordás, José R. Méndez , Florentino Fdez-Riverola, Rosalía Laza and Reyes Pavón


View Abstract


Multiscale Products in B-spline Wavelet Domain: A New Method for Short Exon Detection


Xiaolei Zhang, Guishan Zhang, Yangjiang Yu, Guocheng Pan, Haitao Deng, Xinbao Shi, Yue Jiao, Renhua Wu and Yaowen Chen


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The Advances and Challenges of Deep Learning Application in Biological Big Data Processing


Li Peng, Manman Peng, Bo Liao, Guohua Huang, Weibiao Li and Dingfeng Xie


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Nextpresso: Next Generation Sequencing Expression Analysis Pipeline


Osvaldo Graña, M. Rubio-Camarillo, F. Fdez-Riverola, D. G. Pisano and D. Glez-Peña


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Prediction of New Bacterial Type III Secreted Effectors with a Recursive Hidden Markov Model Profile-Alignment Strategy


Zhirong Guo, Xi Cheng, Xinjie Hui, Xingsheng Shu, Aaron P. White, Yueming Hu and Yejun Wang


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Extracting Diagnostic Knowledge from MedLine Plus: A Comparison between MetaMap and cTAKES Approaches


Alejandro Rodríguez-González, Roberto Costumero, Marcos Martinez-Romero, Mark D.Wilkinson and Ernestina Menasalvas-Ruiz


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Improving the Efficiency and the Accuracy of 2D Gel Electrophoresis Spot Detection Using Graphics Processing Units


Marwa Khamis Elteir, Shaheera Rashwan and Ashraf Khalil


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GENIRF: An Algorithm for Gene Regulatory Network Inference Using Rotation Forest


Jamshid Pirgazi, Ali Reza Khanteymoori and Maryam Jalilkhani


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Information Fusion in Biological Network Inference


Davide Angeli and Jesus S. Aguilar-Ruiz


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RGDtrip: A Database for the Investigation of Proteins Containing the RGD Tripeptide


Yiannis . Hatzis, Trias Thireou, Emmanouil Viennas, Vassilis Atlamazoglou, George K. Papadopoulos, Konstantinos Poulas, Elias Eliopoulos and Giannis Tzimas


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A Pipeline Architecture for Inferring and Visualizing Gene Networks from cDNA Microarray Expression Data in Crop Plants


Guillermo Calderón-Mantilla, Alvaro Gaitan-Bustamante and Luis Fernando Castillo-Ossa


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Adaptive Genetic Algorithm with Exploration-Exploitation Tradeoff for Preprocessing Microarray Datasets


Sivaraj Rajappan and DeviPriya Rangasamy


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Indole Alkaloids as New Leads for the Design and Development of Novel DPP-IV Inhibitors for the Treatment of Diabetes


Kannan Narayanan Dhiraviam, Suganthana Balasubramanian and Sridhar Jayavel


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A Review of Biological Image Analysis


Weiyang Chen, Weiwei Li, Xiangjun Dong and Jialun Pei


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Feature Extractions for Computationally Predicting Protein Post-translational Modifications


Guohua Huang and Jincheng Li


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Evaluation and Comparison of Newly Built Linear B-Cell Epitope Predic-tion Software from a Users’ Perspective


Xiangyu Wang, Zhonglu Ren, Qi Sun, Xuan Wan, Yaqing Sun, Ying Hua, Muqing Fu, Na Shao, Yanli Du, Chengsong Wan and Qiwei Zhang


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A Review of Epidemic Models Related to Meteorological Factors


Yuewu Liu , Yan Peng, Qingfan Li and Xiangquan Xiong


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Methods for Mining Single Nucleotide Polymorphism Data of Complex Diseases


Xiong Li


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An Error Correction and DeNovo Assembly Approach for Nanopore Reads using Short Reads


Mehdi Kchouk and Mourad Elloumi


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Natural Vector Method for Virus Phylogenetic Classification: A Mini-Review


Chenglong Yu


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Searching Exact Tandem Repeats in DNA Sequences Using Enhanced Suffix Array


Shivika Gupta and Rajesh Prasad


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A Heterogeneous Networks Fusion Algorithm Based on Local Topological Information for Neurodegenerative Disease


Xue Jiang, Han Zhang, Xiongwen Quan and Yanbin Yin


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In Silico Identification of Conserved Mirnas from Physcomitrella Patens Ests and Their Target Characterization


Behzad Hajieghrari, Naser Farrokhi, Bahram Goliaei and Kaveh Kavousi


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In-silico Evidences of Regulatory Roles of WT1 Transcription Factor Binding Sites on the Intervening Sequences of the Human Bcl-2 Gene


Nazanin Gholampour-Faroji, Najmeh Farmanbar, Aliakbar Haddad-Mashhadrizeh, Mahdi Mirahmadi, Hassan Monhemi, Safoora Shahreki-Mojahed, Ahmadreza Bahrami, Mohammadreza Housaindokht, Maryam Moghada Matin, Alireza Zomorodipour, Parisa Dadjoo and Mahdi Nohtani


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Prediction of the Interaction between Magnolia Extract, Herbal Medicines, with Human Serum Albumin Using Molecular Dynamics Simulation


Tayebeh Sharifi and Yousef Ghayeb


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Detection of Genes Associated with Follicle Development Through Tran-scriptome Analysis of Bovine Ovarian Follicles GCs


Pengfei Li, Jinzhu Meng, Zhiwei Zhu and Lihua Lyu


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Identification and Analysis of Cancer Diagnosis Using Probabilistic Classification Vector Machines with Feature Selection


Xiuquan Du, Xinrui Li, Wen Li, Yuanting Yan and Yanping Zhang


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Dedicated Heuristic for Peptide Assembly Problem


Tomasz Glowacki, Adam Kozak and Piotr Formanowicz


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Drug and Nondrug Classification based on Deep Learning with Various Feature Selection Strategies


Long Yu, Xia Sun, Shengwei Tian, Xinyu Shi and Yilin Yan


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Integration of DNA Methylation Data and Gene Expression Data for Prostate Adenocarcinoma: A Proof of Concept


Arpit Singh, Razia Rahman and Yasha Hasija


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An Efficient Prediction of HPV Genotypes from Partial Coding Sequences by Chaos Game Representation and Fuzzy k-Nearest Neighbor Technique


Watcharaporn Tanchotsrinon, Chidchanok Lursinsap and Yong Poovorawan


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Computational Analysis of Non-Synonymous SNPs Associated with Ephrin Receptor B2 Gene and Implication in Various Signaling Pathways: A Molecular Dynamics Approach


Iftikhar Aslam Tayubi and Sayane Shome


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Conformational Hotspots of Dengue Virus NS5 RdRp


Fawad Khan, Ashfaq Ahmad, Abid Ali, Syed Shujait Ali and Tayyab Ur Rehman


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Imputation of Ignorable and Non-Ignorable Missing Values in Large Datasets Using ACO with Local Search


Devi Priya Rangasamy and Sivaraj Rajappan


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Alterations in Structural and Biological Activities of Merozoite Surface Protein 2 due to O-GlcNAc Modification: In Silico Approach


Jawaria Munir, Zeeshan Iqbal, Wajahat M. Qazi, Daniel C. Hoessli, Zahid Mahmood and Nasir Uddin


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A Composite Entropy Model in a Multiobjective Framework for Gene Regulatory Networks


Aurpan Majumder, Mrityunjay Sarkar, Harihar Dash and Indupalli Akhilesh


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Information Content Estimate of Model Proteomes: A Primary Structure Perspective


Sertac Eroglu


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SCAN-Toolbox: Structural COBRA Add-oN (SCAN) for Analysing Large Metabolic Networks


Yazdan Asgari, Zahra Zabihinpour and Ali Masoudi-Nejad


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Development and Cross-genera Transferability of Ginger EST-SSR Markers for Cardamom


Mathavaraj Sakthipriya and Kalluvettankuzhy Krishnannair Sabu


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A Weighted Association Rule Mining Method for Predicting HCV-Human Protein Interactions


M. Indhumathy, Ahmed R. Nabhan and S. Arumugam


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A Review of Software Tools for Pathway Crosstalk Inference


Julieta S. Dussaut, Rocío L. Cecchini, Cristian A. Gallo, Ignacio Ponzoni and Jessica A. Carballido


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Computational Modeling of Small Molecule Inhibitors of Mitochondrial Fusion


Sonam Arora, Salma Jamal, Sonam Gaba, Yasha Hasija and Vinod Scaria


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Investigating Key Genes in Type 2 Diabetes Mellitus Via Combining mAP-KL and Mutual Information Network


Guiyan Chen, Weihai Qiu, Shuze Xia and Lijuan Wang


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Codon Usage of Expansin Genes in Populus trichocarpa


Jian Li, Haoyang Li, Junkai Zhi, Chuzhao Shen, Xuesong Yang and Jichen Xu


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Molecular Beacon Based Biosensing for Detection of Pathogenic Water Borne Multiple Fungal Strains: An in-silico Approach


Sonali Mishra and Krishna Misra


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Improved Algorithm for the Detection of Cancerous cells using Discrete Wavelet transformation of Genomic sequences


T M INBAMALAR and R SIVAKUMAR


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DeepInteract: Deep Neural Network based Protein-Protein Interaction prediction tool


Sunil Patel, Rashmi Tripathi, Vandana Kumari and Pritish Kumar Varadwaj


View Abstract


Improving clustering of microRNA microarray data by incorporating functional similarity


Yang Yang, Zhichen Wu and Wei Kong


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Prediction of Protein-Peptide Interactions with a Nearest Neighbor Algorithm


Bi-Qing Li, Yu-Hang Zhang, Mei-ling Jin, Tao Huang and Y D Cai


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Content-Based Search on Time-Series Microarray Databases using Cluster-Based Fingerprints


Esma Erguner Ozkoc and Hasan Ogulc


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Identification of Drug-Drug Interactions Using Chemical Interactions


Lei Chen, Chen Chu, Yu-Hang Zhang, Mingyue Zheng, LiuCun Zhu, XiangYin Kong and Tao Huang


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Discriminating Ramos and Jurkat Cells with Image Textures from Diffraction Imaging Flow Cytometry Based on a Support Vector Machine


Ning Zhang, Yu Sa, Yu Guo, Lin Wang, Ping Wang and Yuanming Feng


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Finger Base - An Algorithm to Predict the Incidence of Zinc Finger Motif From Uncharacterized Proteins


Subramanian Arumugam and Mohan Ajitha


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Implication on the function of novel Xn-relE toxin structure of Xenorhabdus nematophila using Homology modeling


Lalit Kumar Gautam, Ragothaman M. Yennamalli and Jitendra Singh Rathore


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Timely Identification of Disease by Parallel Real-time Automated Processing of Huge Medical Databases of Images Distributed Geographically, through Knowledge Sharing


DALAL BARDOU, Kun Zhang and Sayed Mohammad Ahmad


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MetalExplorer, a Bioinformatics Tool for the Improved Prediction of Eight Types of Metal-binding Sites Using a Random Forest Algorithm with Two-step Feature Selection


Jiangning Song, Chen Li, Cheng Zheng, Jerico Revote, Ziding Zhang and Geoffrey I Webb


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Using a machine-learning approach to predict discontinuous antibody-specific B-cell epitopes


Yiqi Lin, Xiaoping Min, Liangliang Li, Hai Yu, Shengxiang Ge, Jun Zhang and Ningshao Xia


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Analysis and Prediction of Nitrated Tyrosine Sites with the mRMR Method and Support Vector Machine Algorithm


Jing Lu, Shao Peng Wang, Yu-Dong Cai and Qing Zhang


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Euler String-Based Compression of Tree-structured Data and its Application to Analysis of RNAs 1


Liwei Liu, Tomoya Mori, Yang Zhao, Morihiro Hayashida and Tatsuya Akutsu


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Cloning, Bioinformatic Analysis and Expression Pattern of Phospholipase D Gene Family in Vitis vinifera


Dan Yu, Qimin Chen, Weidong Huang, Sibao Wan and Jicheng Zhan


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Cancer Diagnosis Through IsomiR Expression with Machine Learning Method


Zhijun Liao, Quan Zou, Dapeng Li, Lisheng Li and Xinrui Wang


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A Novel Method for Better Bacterial Genome Assembly from Illumina data


Peixiang Ni, Wenkui Dai, Yongfeng Liu, Zhenyu Yang, Tao Zhou, Shuqing Liang, Tong Wang, Jing Xu and Yun Zhao


View Abstract


Gene Selection Using High Dimensional Gene Expression Data: An Appraisal


Abhishek Bhola and Shailendra Singh


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The complexity of promoter regions based on a vector topological entropy


Shuilin Jin, Zhuo Wang, Junyu Lin, Jia Wang, Xiurui Zhang, Renjie Tan, Chuanbin Zhang, Zhe Wang, Wanqian Guo and Li Xu


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Identification of Robust Clustering Methods in Gene Expression Data Analysis


Bipul Hossen and Siraj- Ud- Doulah


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