Current Bioinformatics

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

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Ahead of Print Article(s)

Group-sparse Modeling Drug-kinase Networks for Predicting Combinatorial Drug Sensitivity in Cancer Cells

Volume:13
Hui Liu, Libo Luo, Zhanzhan Cheng, Jianjiang Sun, Jihong Guan, Jie Zheng and Shuigeng Zhou*

SARELI: Sequence Alignment by Radial Evaluation of Local Interactions

Volume:13
Ricardo Ortega, Arturo Chavoya*, Cuauhtemoc Lopez-Martin and Luis Delaye

Large-scale Investigation of Long Noncoding RNA Secondary Structures in Human and Mouse

Volume:13
Xingli Guo, Lin Gao*, Yu Wang, David K.Y. Chiu, Bingbo Wang, Yue Deng and Xiao Wen

Codon Usage Pattern of Metallothionein Genes in the Poplar Genome

Volume:13
Junkai Zhi, Jian Zhang, Jian Li, Hao Zhang and Jichen Xu*

TagDict: Prediction of Theoretical Spectra of Peptides Based on A Tag Dictionary

Volume:13
Yaojun Wang , Jingwei Zhang, Dongbo Bu and Shiwei Sun

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

Volume:12
Li Peng, Manman Peng*, Bo Liao, Guohua Huang, Weibiao Li and Dingfeng Xie

MyPhi: Efficient Levenshtein Distance Computation on Xeon Phi based Architectures

Volume:12
Yuandong Chan *, Kai Xu , Haidong Lan , Bertil Schmidt , Shaoliang Peng and Weiguo Liu

Low Rank Representation and Its Application in Bioinformatics

Volume:12
Yuan You *, Hongmin Cai and Jiazhou Chen

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

Volume:12
Xiaolei Zhang, Guishan Zhang, Yangjiang Yu, Guocheng Pan, Haitao Deng, Xinbao Shi, Yue Jiao, Renhua Wu* and Yaowen Chen*

Features Identification for Phenotypic Classification Based on Genes and Gene Pairs

Volume:12
Yansen Su *, Yanxin Li, Zheng Zhang and Linqiang Pan

Identification of Attention Deficit/Hyperactivity Disorder in Children Using Multiple ERP Features

Volume:12
Wenjie Li *, Tiantong Zhou , Ling Zou, Jieru Lu , Hui Liu and Suhong Wang

Prediction of Protein S-Sulfenylation Sites Using a Deep Belief Network

Volume:12
Lulu Nie *, Lei Deng , Chao Fan , Weihua Zhan and Yongjun Tang

A Metric on the Space of Rooted Phylogenetic Trees

Volume:12
Juan Wang and Maozu Guo*

A New Approach of Outlier-Robust Missing Value Imputation for Metabolomics Data Analysis

Volume:12
Nishith Kumar *, Md. Aminul Hoque , Md. Shahjaman , S M Shahinul Islam and Md. Nurul Haque Mollah

Identification of Bone Metastasis-Associated Genes of Gastric Cancer by Genome-Wide Transcriptional Profiling

Volume:12
Mingzhe Lin*, Xin Li, Haizhou Guo, Faxiang Ji , Linhan Ye , Xuemei Ma and Wen Cheng

Genome-Wide Characterization of Major Intrinsic Protein (MIP) Gene Family in Brachypodium distachyon

Volume:12
Ankush Ashok Saddhe, Shweta Shweta, Kareem Ali Mosa, Kundan Kumar*, Manoj Prasad and Om Parkash Dhankher

Inference of Transcriptional Regulation from Expression Data Using Model Integration

Volume:12
Long Wang, Jing Guo, Ji-Wei Chang, Muhammad Tahir ul Qamar and Ling-Ling Chen*

Recent Progress in Long Noncoding RNAs Prediction

Volume:12
Yu-Hua Yao*, Lili Geng, Ping-an He, Bo Liao and Xuying Nan

A Review of Computational Approaches to Predict Gene Functions

Volume:12
Swee Kuan Loh , Swee Thing Low, Lian En Chai , Weng Howe Chan, Mohd Saberi Mohamad*, Safaai Deris , Zuwairie Ibrahim , Shahreen Kasim , Zuraini Ali Shah, Hamimah Mohd Jamil , Z. Zakariaa and Suhaimi Napis

A Novel Approach based on Bipartite Network to Predict Human Microbe-Disease Associations

Volume:12
Lei Wang*, Pengyao Ping, Linai Kuang, Songtao Ye, Faisal Muhammad Buland lqbal and Tingrui Pei

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

Volume:11
Yazdan Asgari, Zahra Zabihinpour and Ali Masoudi-Nejad

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

Volume:12
Haizhen Liu, Jianqin Li, Yongkun Chen, Yan-rong Xu and Jichen Xu*

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

Volume:12
Jorge Fdez-Glez, David Ruano-Ordás, José R. Méndez , Florentino Fdez-Riverola*, Rosalía Laza and Reyes Pavón

Nextpresso: Next Generation Sequencing Expression Analysis Pipeline

Volume:12
Osvaldo Graña*, M. Rubio-Camarillo, F. Fdez-Riverola, D. G. Pisano and D. Glez-Peña

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

Volume:12
Zhirong Guo, Xi Cheng, Xinjie Hui, Xingsheng Shu, Aaron P. White, Yueming Hu and Yejun Wang*

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

Volume:12
Alejandro Rodríguez-González*, Roberto Costumero, Marcos Martinez-Romero, Mark D.Wilkinson and Ernestina Menasalvas-Ruiz

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

Volume:12
Jamshid Pirgazi, Ali Reza Khanteymoori* and Maryam Jalilkhani

Information Fusion in Biological Network Inference

Volume:12
Davide Angeli and Jesus S. Aguilar-Ruiz*

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

Volume:12
Yiannis . Hatzis, Trias Thireou, Emmanouil Viennas, Vassilis Atlamazoglou, George K. Papadopoulos, Konstantinos Poulas, Elias Eliopoulos and Giannis Tzimas*

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

Volume:12
Guillermo Calderón-Mantilla, Alvaro Gaitan-Bustamante and Luis Fernando Castillo-Ossa*

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

Volume:12
Kannan Narayanan Dhiraviam*, Suganthana Balasubramanian and Sridhar Jayavel

A Review of Biological Image Analysis

Volume:12
Weiyang Chen*, Weiwei Li, Xiangjun Dong and Jialun Pei

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

Volume:12
Xiangyu Wang, Zhonglu Ren, Qi Sun, Xuan Wan, Yaqing Sun, Ying Hua, Muqing Fu, Na Shao, Yanli Du, Chengsong Wan* and Qiwei Zhang

A Review of Epidemic Models Related to Meteorological Factors

Volume:12
Yuewu Liu , Yan Peng, Qingfan Li and Xiangquan Xiong

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

Volume:12
Behzad Hajieghrari, Naser Farrokhi*, Bahram Goliaei and Kaveh Kavousi

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

Volume:12
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

Dedicated Heuristic for Peptide Assembly Problem

Volume:12
Tomasz Glowacki, Adam Kozak and Piotr Formanowicz

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

Volume:12
Long Yu, Xia Sun, Shengwei Tian, Xinyu Shi and Yilin Yan

Conformational Hotspots of Dengue Virus NS5 RdRp

Volume:12
Fawad Khan, Ashfaq Ahmad, Abid Ali, Syed Shujait Ali and Tayyab Ur Rehman

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

Volume:11
Aurpan Majumder, Mrityunjay Sarkar, Harihar Dash and Indupalli Akhilesh

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

Volume:11
Mathavaraj Sakthipriya and Kalluvettankuzhy Krishnannair Sabu

A Review of Software Tools for Pathway Crosstalk Inference

Volume:11
Julieta S. Dussaut, Rocío L. Cecchini, Cristian A. Gallo, Ignacio Ponzoni and Jessica A. Carballido