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BMC Research Notes

Bioinformatics

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  1. Content type: Research article

    The determination of specific kinase substrates in vivo is challenging due to the large number of protein kinases in cells, their substrate specificity overlap, and the lack of highly specific inhibitors. In t...

    Authors: Valentina Romano, Tjaart A. P. de Beer and Torsten Schwede

    Citation: BMC Research Notes 2017 10:104

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  2. Content type: Technical Note

    Several methods have been developed to identify differential correlation (DC) between pairs of molecular features from –omics studies. Most DC methods have only been tested with microarrays and other platforms...

    Authors: Charlotte Siska and Katerina Kechris

    Citation: BMC Research Notes 2017 10:54

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  3. Content type: Research article

    The taxonomic and phylogenetic classification based on sequence analysis of the ITS1 genomic region has become a crucial component of fungal ecology and diversity studies. Nowadays, there is no accurate alignm...

    Authors: Luisa Delgado-Serrano, Silvia Restrepo, Jose Ricardo Bustos, Maria Mercedes Zambrano and Juan Manuel Anzola

    Citation: BMC Research Notes 2016 9:402

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  4. Content type: Technical Note

    DNA metabarcoding is an approach for identifying multiple taxa in an environmental sample using specific genetic loci and taxa-specific primers. When combined with high-throughput sequencing it enables the tax...

    Authors: Marie Lisandra Zepeda-Mendoza, Kristine Bohmann, Aldo Carmona Baez and M. Thomas P. Gilbert

    Citation: BMC Research Notes 2016 9:255

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  5. Content type: Technical Note

    Basic local alignment search tool (BLAST) searches are frequently used to look for homologous sequences and to annotate a query protein, but the increasing size of protein databases makes it difficult to revie...

    Authors: Pablo Mier and Miguel A. Andrade-Navarro

    Citation: BMC Research Notes 2016 9:253

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  6. Content type: Research Article

    The influenza genome is highly variable due primarily to two mechanisms: antigenic drift and antigenic shift. A third mechanism for genetic change, known as copy choice or template switching, can arise during ...

    Authors: Antara De, Tapati Sarkar and Ashesh Nandy

    Citation: BMC Research Notes 2016 9:222

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  7. Content type: Short Report

    An absent word with respect to a sequence is a word that does not occur in the sequence as a factor; an absent word is minimal if all its factors on the other hand occur in that sequence. In this paper we expl...

    Authors: Mohammad Saifur Rahman, Ali Alatabbi, Tanver Athar, Maxime Crochemore and M. Sohel Rahman

    Citation: BMC Research Notes 2016 9:186

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  8. Content type: Technical Note

    Genome-wide association studies (GWAS) have identified thousands of genetic variants associated with complex traits and diseases. However, most of them are located in the non-protein coding regions, and theref...

    Authors: Zheng Xu, Guosheng Zhang, Qing Duan, Shengjie Chai, Baqun Zhang, Cong Wu, Fulai Jin, Feng Yue, Yun Li and Ming Hu

    Citation: BMC Research Notes 2016 9:159

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  9. Content type: Research article

    Genetic comparisons of clinical and environmental Legionella strains form an essential part of outbreak investigations. DNA microarrays often comprise many DNA markers (features). Feature selection and the dev...

    Authors: Tjeerd van der Ploeg and Ewout W. Steyerberg

    Citation: BMC Research Notes 2016 9:147

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  10. Content type: Technical Note

    To cope with the ever-increasing amount of sequence data generated in the field of genomics, the demand for efficient and fast database searches that drive functional and structural annotation in both large- a...

    Authors: Martin Page, Dan MacLean and Christian Schudoma

    Citation: BMC Research Notes 2016 9:130

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  11. Content type: Technical Note

    Keeping up with journal articles on a daily basis is an important activity of scientists engaged in biomedical research. Usually, journal articles and papers in the field of biomedicine are accessed through th...

    Authors: Pavel Evdokimov, Alexey Kudryavtsev, Ekaterina Ilgisonis, Elena Ponomarenko and Andrey Lisitsa

    Citation: BMC Research Notes 2016 9:113

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  12. Content type: Research article

    The cost per patient of next generation sequencing for detection of rare mutations may be significantly reduced using pooled experiments. Recently, some techniques have been proposed for the planning of pooled...

    Authors: Daniela Evangelista, Antonio Zuccaro, Algirdas Lančinskas, Julius Žilinskas and Mario R. Guarracino

    Citation: BMC Research Notes 2016 9:111

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  13. Content type: Research article

    Accurate detection of somatic single nucleotide variants and small insertions and deletions from DNA sequencing experiments of tumour-normal pairs is a challenging task. Tumour samples are often contaminated w...

    Authors: Robert E. Denroche, Laura Mullen, Lee Timms, Timothy Beck, Christina K. Yung, Lincoln Stein, John D. McPherson and Andrew M. K. Brown

    Citation: BMC Research Notes 2015 8:823

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  14. Content type: Technical Note

    Organisms are subject to various stress conditions, which affect both the organism’s gene expression and phenotype. It is critical to understand microbial responses to stress conditions and uncover the underly...

    Authors: Niveda Sundararaman, Christine Ash, Weihua Guo, Rebecca Button, Jugroop Singh and Xueyang Feng

    Citation: BMC Research Notes 2015 8:771

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