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317 Newest Publications in current bioinformatics

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Using the Residue Interaction Network Improve the Classification of Thermophilic and Mesophilic Proteins

06-Jun-2017 | Gao, Xiaomei; Ding, Yanrui, Current Bioinformatics, 2017

Abstract: Background: The residue interaction network contains a large amount of protein three dimensional spatial information determined by sequence characteristics. It is an effective way to study protein thermosability from network perspective. Objective: We use residue interaction ...

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Integrated Application of Enhanced Replacement Method and Ensemble Learning for the Prediction of BCRP/ABCG2 Substrates

06-Jun-2017 | E. Gantner, Melisa; N. Alberca, Lucas; G. Mercader, Andrew; E. Bruno-Blanch, Luis; Talevia, Alan, Current Bioinformatics, 2017

Abstract: Background: Breast Cancer Resistance Protein (BCRP or ABCG2) is a polyspecific effluxtransporter which belongs to the ATP-binding Cassette superfamily. Up-regulation of BCRP is associated to multi-drug resistance in a number of conditions, e.g. cancer and epilepsy. Recent ...

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Enhancing Efficiency of Protein Functional Prediction Through Association Network Using Greedy Weighting Method

06-Jun-2017 | Kheirkhah, Atabak; Mohd Daud, Salwani; Kamardin, Kamilia, Current Bioinformatics, 2017

Abstract: Background: In spite of the significant data surrounding complex gene networks including gene function, the occurrence of huge redundancy affects the efficiency. Objective: This work proposes a mining method to reduce the number of redundant nodes in a composite weighted network. ...

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Fast and Practical Algorithms for Searching the Gapped Palindromes

06-Jun-2017 | Gupta, Shivika; Prasad, Rajesh; Yadav, Sunita, Current Bioinformatics, 2017

Abstract: Background: The remarkable gapped palindrome structures can have profound effects on chromosomes and are responsible for neurological diseases in humans. Gapped palindromes refer to the palindromes that have a space (set of characters) between the left and right palindromic arms of the ...

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A Review of Gene Selection Tools in Classifying Cancer Microarray Data

06-Jun-2017 | W. Shi, Tham; S. Kah, Wong; S. Mohamad, Mohd; Moorthy, Kohbalan; Deris, Safaai; F. Sjaugi, Muhammad; Omatu, Sigeru; ..., Current Bioinformatics, 2017

Abstract: Background: The measurement of expression levels of many genes through a single experiment is now possible due to the development of DNA microarray technology. However, many computational methods are having difficulties in selecting a small subset of genes because there are a few ...

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The mAP-KL Algorithm Combined with Mutual Information Network Used to Screen Hub Genes in Osteosarcoma

06-Jun-2017 | Wu, Yan-Sheng; Liu, Jian-Jun; Zheng, Chang-Jun, Current Bioinformatics, 2017

Abstract: Objective: To identify potential biomarkers of osteosarcoma (OS) to further elaborate the molecular mechanisms underlying OS through mAP-KL algorithm and mutual information network. Methods: E-GEOD-33382 and E-GEOD-28974 were downloaded from EMBL-EBI database and then were ...

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Understanding the Evolutionary Relationship of M2 Channel Protein of Influenza A Virus and its Structural Variation and Drug Resistance

06-Jun-2017 | Gopinath, Krishnasamy; Karthikeyan, Muthusamy, Current Bioinformatics, 2017

Abstract: Background: M2 channel protein of influenza A virus is one of the specific targets for the anti-influenza drugs amantadine and rimantadine. These drugs have lost their efficacy because of the mutations in their drug interaction sites. Large-scale analysis of these influenza ...

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Deep Convolutional Neural Networks for Predicting Hydroxyproline in Proteins

06-Jun-2017 | Long, HaiXia; Wang, Mi; Fu, HaiYan, Current Bioinformatics, 2017

Abstract: Background: Protein hydroxyproline is one type of post translational modification (PTM). Because protein sequence contains many uncharacterized residues of P, the question that needs to be answered is: Which ones can be hydroxylated, and which ones cannot? The solution will not ...

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Co-Clustering Analysis of Protein Secondary Structures

06-Jun-2017 | Ma, Lichun; Wang, Debby D.; Liu, Xinyu; Zou, Bin; Yan, Hong, Current Bioinformatics, 2017

Abstract: Background: The protein secondary structure provides a crucial link between a protein sequence and its final 3D structure. Thus, accurate prediction of protein secondary structure becomes very important. Objective: In this study, we try to obtain a subset of highly regular features of ...

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Novel Elements of Bacterial Genomes - Promoter Islands: Intraspecies Polymorphism and Sequence Stability

06-Jun-2017 | S. Kiselev, Sergey; N.Ozoline, Olga; A. Glazunova, Olga; V. Panyukov, Valeriy; S. Shavkunov, Konstantin, Current Bioinformatics, 2017

Abstract: Background: Being discovered in bacterial genomes as regions with a high density of promoter–like sequences, promoter islands attracted attention due to an unusual combination of their functional features, specific structure and genomic location. Interacting with RNA polymerase, they ...

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