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Items: 1 to 20 of 85


AMP: Assembly Matching Pursuit.

Biswas S, Jojic V.

Pac Symp Biocomput. 2013:175-87.


Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease.

Greenblum S, Turnbaugh PJ, Borenstein E.

Proc Natl Acad Sci U S A. 2012 Jan 10;109(2):594-9. doi: 10.1073/pnas.1116053109. Epub 2011 Dec 19.


Metagenomics and personalized medicine.

Virgin HW, Todd JA.

Cell. 2011 Sep 30;147(1):44-56. doi: 10.1016/j.cell.2011.09.009.


SEPP: SATé-enabled phylogenetic placement.

Mirarab S, Nguyen N, Warnow T.

Pac Symp Biocomput. 2012:247-58.


Sparse distance-based learning for simultaneous multiclass classification and feature selection of metagenomic data.

Liu Z, Hsiao W, Cantarel BL, Drábek EF, Fraser-Liggett C.

Bioinformatics. 2011 Dec 1;27(23):3242-9. doi: 10.1093/bioinformatics/btr547. Epub 2011 Oct 7.


Accurate genome relative abundance estimation based on shotgun metagenomic reads.

Xia LC, Cram JA, Chen T, Fuhrman JA, Sun F.

PLoS One. 2011;6(12):e27992. doi: 10.1371/journal.pone.0027992. Epub 2011 Dec 6.


Evaluation of short read metagenomic assembly.

Charuvaka A, Rangwala H.

BMC Genomics. 2011;12 Suppl 2:S8. doi: 10.1186/1471-2164-12-S2-S8. Epub 2011 Jul 27.


Unsupervised two-way clustering of metagenomic sequences.

Prabhakara S, Acharya R.

J Biomed Biotechnol. 2012;2012:153647. doi: 10.1155/2012/153647. Epub 2012 Apr 5. Erratum in: J Biomed Biotechnol. 2012;2012:795820.


Statistical geometry based prediction of nonsynonymous SNP functional effects using random forest and neuro-fuzzy classifiers.

Barenboim M, Masso M, Vaisman II, Jamison DC.

Proteins. 2008 Jun;71(4):1930-9. doi: 10.1002/prot.21838.


Estimating DNA coverage and abundance in metagenomes using a gamma approximation.

Hooper SD, Dalevi D, Pati A, Mavromatis K, Ivanova NN, Kyrpides NC.

Bioinformatics. 2010 Feb 1;26(3):295-301. doi: 10.1093/bioinformatics/btp687. Epub 2009 Dec 14.


Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences.

Liu B, Gibbons T, Ghodsi M, Treangen T, Pop M.

BMC Genomics. 2011;12 Suppl 2:S4. doi: 10.1186/1471-2164-12-S2-S4. Epub 2011 Jul 27.


Genetic studies of complex human diseases: characterizing SNP-disease associations using Bayesian networks.

Han B, Chen XW, Talebizadeh Z, Xu H.

BMC Syst Biol. 2012;6 Suppl 3:S14. doi: 10.1186/1752-0509-6-S3-S14. Epub 2012 Dec 17.


Class prediction and feature selection with linear optimization for metagenomic count data.

Liu Z, Chen D, Sheng L, Liu AY.

PLoS One. 2013;8(3):e53253. doi: 10.1371/journal.pone.0053253. Epub 2013 Mar 26. Erratum in: PLoS One. 2014;9(5):e97958.


A framework for analysis of metagenomic sequencing data.

Murat Eren A, Ferris MJ, Taylor CM.

Pac Symp Biocomput. 2011:131-41.


Dictionary learning algorithms for sparse representation.

Kreutz-Delgado K, Murray JF, Rao BD, Engan K, Lee TW, Sejnowski TJ.

Neural Comput. 2003 Feb;15(2):349-96.


MOCAT: a metagenomics assembly and gene prediction toolkit.

Kultima JR, Sunagawa S, Li J, Chen W, Chen H, Mende DR, Arumugam M, Pan Q, Liu B, Qin J, Wang J, Bork P.

PLoS One. 2012;7(10):e47656. doi: 10.1371/journal.pone.0047656. Epub 2012 Oct 17.

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