Skip to main content

Articles

Page 116 of 249

  1. The scale and complexity of genomic data lend themselves to analysis using sophisticated mathematical techniques to yield information that can generate new hypotheses and so guide further experimental investig...

    Authors: Basel Abu-Jamous, Rui Fa, David J Roberts and Asoke K Nandi
    Citation: BMC Bioinformatics 2014 15:322
    Content type: Research article Published on:

  23. Metabolic networks are represented by the set of metabolic pathways. Metabolic pathways are a series of biochemical reactions, in which the product (output) from one reaction serves as the substrate (input) to...

    Authors: Abiel Roche-Lima, Michael Domaratzki and Brian Fristensky
    Citation: BMC Bioinformatics 2014 15:318
    Content type: Research article Published on:

  26. Mechanistic models that describe the dynamical behaviors of biochemical systems are common in computational systems biology, especially in the realm of cellular signaling. The development of families of such m...

    Authors: John E Wenskovitch Jr., Leonard A Harris, Jose-Juan Tapia, James R Faeder and G Elisabeta Marai
    Citation: BMC Bioinformatics 2014 15:316
    Content type: Research article Published on:

  27. Prioritizing genetic variants is a challenge because disease susceptibility loci are often located in genes of unknown function or the relationship with the corresponding phenotype is unclear. A global data-mi...

    Authors: Li Jiang, Stefan M Edwards, Bo Thomsen, Christopher T Workman, Bernt Guldbrandtsen and Peter Sørensen
    Citation: BMC Bioinformatics 2014 15:315
    Content type: Research article Published on:

  28. Flow cytometry (FC)-based computer-aided diagnostics is an emerging technique utilizing modern multiparametric cytometry systems.The major difficulty in using machine-learning approaches for classification of ...

    Authors: Murat Dundar, Ferit Akova, Halid Z Yerebakan and Bartek Rajwa
    Citation: BMC Bioinformatics 2014 15:314
    Content type: Research article Published on:

  29. An organism’s DNA sequence is one of the key factors guiding the positioning of nucleosomes within a cell’s nucleus. Sequence-dependent bending anisotropy dictates how DNA is wrapped around a histone octamer. ...

    Authors: Feng Cui, Linlin Chen, Peter R LoVerso and Victor B Zhurkin
    Citation: BMC Bioinformatics 2014 15:313
    Content type: Methodology article Published on:

  30. DNA methylation is a widely studied epigenetic phenomenon; alterations in methylation patterns influence human phenotypes and risk of disease. As part of the Atherosclerosis Risk in Communities (ARIC) study, t...

    Authors: Maitreyee Bose, Chong Wu, James S Pankow, Ellen W Demerath, Jan Bressler, Myriam Fornage, Megan L Grove, Thomas H Mosley, Chindo Hicks, Kari North, Wen Hong Kao, Yu Zhang, Eric Boerwinkle and Weihua Guan
    Citation: BMC Bioinformatics 2014 15:312
    Content type: Research article Published on:

  32. Non-small cell lung cancer (NSCLC), the most common type of lung cancer, is one of serious diseases causing death for both men and women. Computer-aided diagnosis and survival prediction of NSCLC, is of great ...

    Authors: Hongyuan Wang, Fuyong Xing, Hai Su, Arnold Stromberg and Lin Yang
    Citation: BMC Bioinformatics 2014 15:310
    Content type: Research article Published on:

  33. Viruses are typically characterized by high mutation rates, which allow them to quickly develop drug-resistant mutations. Mining relevant rules from mutation data can be extremely useful to understand the viru...

    Authors: Elisa Cilia, Stefano Teso, Sergio Ammendola, Tom Lenaerts and Andrea Passerini
    Citation: BMC Bioinformatics 2014 15:309
    Content type: Research article Published on:

  34. In somatic cancer genomes, delineating genuine driver mutations against a background of multiple passenger events is a challenging task. The difficulty of determining function from sequence data and the low fr...

    Authors: Simon Kebede Merid, Daria Goranskaya and Andrey Alexeyenko
    Citation: BMC Bioinformatics 2014 15:308
    Content type: Methodology article Published on:

  36. Cancer immunotherapy has recently entered a remarkable renaissance phase with the approval of several agents for treatment. Cancer treatment platforms have demonstrated profound tumor regressions including com...

    Authors: Andreas Dander, Matthias Baldauf, Michael Sperk, Stephan Pabinger, Benjamin Hiltpolt and Zlatko Trajanoski
    Citation: BMC Bioinformatics 2014 15:306
    Content type: Software Published on:

  37. Bioactive cyclic peptides derived from natural sources are well studied, particularly those derived from non-ribosomal synthetases in fungi or bacteria. Ribosomally synthesised bioactive disulphide-bonded loop...

    Authors: Fergal J Duffy, Marc Devocelle, David R Croucher and Denis C Shields
    Citation: BMC Bioinformatics 2014 15:305
    Content type: Research article Published on:

  38. Understanding the relationship between diseases based on the underlying biological mechanisms is one of the greatest challenges in modern biology and medicine. Exploring disease-disease associations by using s...

    Authors: Kai Sun, Joana P Gonçalves, Chris Larminie and Nataša Pržulj
    Citation: BMC Bioinformatics 2014 15:304
    Content type: Research article Published on:

  39. Various methods have been developed to computationally predict hotspot residues at novel protein-protein interfaces. However, there are various challenges in obtaining accurate prediction. We have developed a ...

    Authors: Prashant Shingate, Malini Manoharan, Anshul Sukhwal and Ramanathan Sowdhamini
    Citation: BMC Bioinformatics 2014 15:303
    Content type: Research article Published on:

  40. De novo genome assembly of next-generation sequencing data is one of the most important current problems in bioinformatics, essential in many biological applications. In spite of significant amount of work in ...

    Authors: Lucian Ilie, Bahlul Haider, Michael Molnar and Roberto Solis-Oba
    Citation: BMC Bioinformatics 2014 15:302
    Content type: Software Published on:

  41. Plasmid DNA molecules are closed circular molecules that are widely used in life sciences, particularly in gene therapy research. Monte Carlo methods have been used for several years to simulate the conformati...

    Authors: Adriano N Raposo and Abel JP Gomes
    Citation: BMC Bioinformatics 2014 15:301
    Content type: Methodology article Published on:

  42. Vision-based surveillance and monitoring is a potential alternative for early detection of respiratory disease outbreaks in urban areas complementing molecular diagnostics and hospital and doctor visit-based a...

    Authors: Tuan Hue Thi, Li Wang, Ning Ye, Jian Zhang, Sebastian Maurer-Stroh and Li Cheng
    Citation: BMC Bioinformatics 2014 15:300
    Content type: Research article Published on:

  43. Recent advances in RNA structure probing technologies, including the ones based on high-throughput sequencing, have improved the accuracy of thermodynamic folding with quantitative nucleotide-resolution struct...

    Authors: Ping Ge, Cuncong Zhong and Shaojie Zhang
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S15
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

  44. There are many programs available for generating simulated whole-genome shotgun sequence reads. The data generated by many of these programs follow predefined models, which limits their use to the authors' ori...

    Authors: Stephen Johnson, Brett Trost, Jeffrey R Long, Vanessa Pittet and Anthony Kusalik
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S14
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

  45. Acquiring genomes at single-cell resolution has many applications such as in the study of microbiota. However, deep sequencing and assembly of all of millions of cells in a sample is prohibitively costly. A pr...

    Authors: Zeinab Taghavi
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S13
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

  46. We introduce a novel method, called PuFFIN, that takes advantage of paired-end short reads to build genome-wide nucleosome maps with larger numbers of detected nucleosomes and higher accuracy than existing too...

    Authors: Anton Polishko, Evelien M Bunnik, Karine G Le Roch and Stefano Lonardi
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S11
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

  47. Data from large Next Generation Sequencing (NGS) experiments present challenges both in terms of costs associated with storage and in time required for file transfer. It is sometimes possible to store only a s...

    Authors: Roye Rozov, Ron Shamir and Eran Halperin
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S7
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

  48. Multi-assembly problems have gathered much attention in the last years, as Next-Generation Sequencing technologies have started being applied to mixed settings, such as reads from the transcriptome (RNA-Seq), ...

    Authors: Romeo Rizzi, Alexandru I Tomescu and Veli Mäkinen
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S5
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

  49. The advancement of RNA sequencing (RNA-seq) has provided an unprecedented opportunity to assess both the diversity and quantity of transcript isoforms in an mRNA transcriptome. In this paper, we revisit the co...

    Authors: Yan Huang, Yin Hu and Jinze Liu
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S3
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

  50. With the advent of Next-Generation Sequencing technologies (NGS), a large amount of short read data has been generated. If a reference genome is not available, the assembly of a template sequence is usually ch...

    Authors: Matteo Comin and Michele Schimd
    Citation: BMC Bioinformatics 2014 15(Suppl 9):S1
    Content type: Proceedings Published on:

    This article is part of a Supplement: Volume 15 Supplement 9

Featured videos

View featured videos from across the BMC-series journals

Submit manuscript

Annual Journal Metrics

  • Citation Impact 2023
    Journal Impact Factor: 2.9
    5-year Journal Impact Factor: 3.6
    Source Normalized Impact per Paper (SNIP): 0.821
    SCImago Journal Rank (SJR): 1.005

    Speed 2023
    Submission to first editorial decision (median days): 12
    Submission to acceptance (median days): 146

    Usage 2023
    Downloads: 5,987,678
    Altmetric mentions: 4,858

Follow

Sign up for article alerts and news from this journal

BMC Bioinformatics

ISSN: 1471-2105

Contact us