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Items: 1 to 20 of 31

1.

MBEToolbox: a MATLAB toolbox for sequence data analysis in molecular biology and evolution.

Cai JJ, Smith DK, Xia X, Yuen KY.

BMC Bioinformatics. 2005 Mar 22;6:64.

2.

Software applications for flux balance analysis.

Lakshmanan M, Koh G, Chung BK, Lee DY.

Brief Bioinform. 2014 Jan;15(1):108-22. doi: 10.1093/bib/bbs069. Epub 2012 Nov 5. Review.

PMID:
23131418
3.

Unix survival guide.

Stein LD.

Curr Protoc Bioinformatics. 2007 Jan;Appendix 1:Appendix 1C. doi: 10.1002/0471250953.bia01cs16. Review.

PMID:
18428775
4.

MEGA biocentric software for sequence and phylogenetic analysis: a review.

Sohpal VK, Dey A, Singh A.

Int J Bioinform Res Appl. 2010;6(3):230-40. Review.

PMID:
20615832
5.

Mathematical modeling of biochemical systems with PottersWheel.

Maiwald T, Eberhardt O, Blumberg J.

Methods Mol Biol. 2012;880:119-38. doi: 10.1007/978-1-61779-833-7_8. Review.

PMID:
23361985
6.

Using GenePattern for gene expression analysis.

Kuehn H, Liberzon A, Reich M, Mesirov JP.

Curr Protoc Bioinformatics. 2008 Jun;Chapter 7:Unit 7.12. doi: 10.1002/0471250953.bi0712s22. Review.

7.

Bringing molecules back into molecular evolution.

Wilke CO.

PLoS Comput Biol. 2012;8(6):e1002572. doi: 10.1371/journal.pcbi.1002572. Epub 2012 Jun 28. Review.

8.

Consistent design schematics for biological systems: standardization of representation in biological engineering.

Matsuoka Y, Ghosh S, Kitano H.

J R Soc Interface. 2009 Aug 6;6 Suppl 4:S393-404. doi: 10.1098/rsif.2009.0046.focus. Epub 2009 Jun 3. Review.

9.

Bioimage informatics: a new area of engineering biology.

Peng H.

Bioinformatics. 2008 Sep 1;24(17):1827-36. doi: 10.1093/bioinformatics/btn346. Epub 2008 Jul 4. Review.

10.
11.

Sequence alignment in molecular biology.

Apostolico A, Giancarlo R.

J Comput Biol. 1998 Summer;5(2):173-96. Review.

PMID:
9672827
12.

Orchestrating high-throughput genomic analysis with Bioconductor.

Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M.

Nat Methods. 2015 Feb;12(2):115-21. doi: 10.1038/nmeth.3252. Review.

13.

Evolvix BEST Names for semantic reproducibility across code2brain interfaces.

Loewe L, Scheuer KS, Keel SA, Vyas V, Liblit B, Hanlon B, Ferris MC, Yin J, Dutra I, Pietsch A, Javid CG, Moog CL, Meyer J, Dresel J, McLoone B, Loberger S, Movaghar A, Gilchrist-Scott M, Sabri Y, Sescleifer D, Pereda-Zorrilla I, Zietlow A, Smith R, Pietenpol S, Goldfinger J, Atzen SL, Freiberg E, Waters NP, Nusbaum C, Nolan E, Hotz A, Kliman RM, Mentewab A, Fregien N, Loewe M.

Ann N Y Acad Sci. 2017 Jan;1387(1):124-144. doi: 10.1111/nyas.13192. Epub 2016 Dec 5. Review.

14.

Applications of genetic programming in cancer research.

Worzel WP, Yu J, Almal AA, Chinnaiyan AM.

Int J Biochem Cell Biol. 2009 Feb;41(2):405-13. doi: 10.1016/j.biocel.2008.09.025. Epub 2008 Oct 2. Review.

15.

Inventories to insights.

Aitchison JD, Galitski T.

J Cell Biol. 2003 May 12;161(3):465-9. Review.

16.

Wavelet analysis in current cancer genome research: a survey.

Meng T, Soliman AT, Shyu ML, Yang Y, Chen SC, Iyengar SS, Yordy JS, Iyengar P.

IEEE/ACM Trans Comput Biol Bioinform. 2013 Nov-Dec;10(6):1442-59. doi: 10.1109/TCBB.2013.134. Review.

PMID:
24407303
17.

To naturally compute (something like) biology.

Salthe SN.

Prog Biophys Mol Biol. 2013 Sep;113(1):57-9. doi: 10.1016/j.pbiomolbio.2013.03.005. Epub 2013 Apr 3. Review.

PMID:
23562916
18.

Demystifying computer science for molecular ecologists.

Belcaid M, Toonen RJ.

Mol Ecol. 2015 Jun;24(11):2619-40. doi: 10.1111/mec.13175. Epub 2015 May 7. Review.

PMID:
25824671
19.

A quantum model of exaptation: incorporating potentiality into evolutionary theory.

Gabora L, Scott EO, Kauffman S.

Prog Biophys Mol Biol. 2013 Sep;113(1):108-16. doi: 10.1016/j.pbiomolbio.2013.03.012. Epub 2013 Apr 6. Review.

PMID:
23567156
20.

Informatics approaches for identifying biologic relationships in time-series data.

McKinney BA.

Wiley Interdiscip Rev Nanomed Nanobiotechnol. 2009 Jan-Feb;1(1):60-68. doi: 10.1002/wnan.12. Review.

PMID:
20049779

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