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M

Mendelowitz LM, Schwartz DC, Pop M. 2016. Maligner: a fast ordered restriction map aligner.. Bioinformatics. 32(7):1016-22.

Ondov BD, Treangen T, Melsted áll, Mallonee AB, Bergman NH, Koren S, Phillippy AM. 2016. Mash: fast genome and metagenome distance estimation using MinHash. Genome Biology. (1Suppl 19)

Wan L.B, Pan H., Hannenhalli S, Cheng Y., Ma J., Fedoriw A., Lobanenkov V., Latham K.E, Schultz R.M, Bartolomei M.S. 2008. Maternal depletion of CTCF reveals multiple functions during oocyte and preimplantation embryo development. DevelopmentDevelopment. 135

Patro R., Ip CYiu, Bista S., Cho S.S, Thirumalai D., Varshney A. 2011. MDMap: A system for data-driven layout and exploration of molecular dynamics simulations. Biological Data Visualization (BioVis), 2011 IEEE Symposium on.

Bringaud F, Müller M, Cerqueira GCoutinho, Smith M, Rochette A, el-Sayed NMA, Papadopoulou B, Ghedin E. 2007. Members of a large retroposon family are determinants of post-transcriptional gene expression in Leishmania.. PLoS Pathog. 3(9):1291-307.

Gill SR, Pop M., DeBoy RT, Eckburg PB, Turnbaugh PJ, Samuel BS, Gordon JI, Relman DA, Fraser-Liggett CM, Nelson KE. 2006. Metagenomic Analysis of the Human Distal Gut Microbiome. ScienceScienceScienceScience. 312

Ghurye JS, Cepeda-Espinoza V, Pop M. 2016. Metagenomic Assembly: Overview, Challenges and Applications. Yale J Biol Med. 89(3)

Treangen T, Koren S., Sommer D.D, Liu B., Astrovskaya I, Ondov B., Darling A.E, Phillippy A.M, Pop M.. 2013. MetAMOS: a modular and open source metagenomic assembly and analysis pipeline. Genome BiolGenome Biol. 14

Treangen T, Koren S., Sommer D.D, Liu B., Astrovskaya I, Ondov B., Darling A.E, Phillippy A.M, Pop M.. 2013. MetAMOS: a modular and open source metagenomic assembly and analysis pipeline. Genome BiolGenome Biol. 14

Liu B, Pop M.. 2011. MetaPath: identifying differentially abundant metabolic pathways in metagenomic datasets. BMC ProceedingsBMC Proceedings. 5

Liu B, Gibbons T., Ghodsi M., Pop M.. 2010. MetaPhyler: Taxonomic profiling for metagenomic sequences. 2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

Darling AE, Treangen T, Messeguer X, Perna NT. 2007. Methods in Molecular BiologyComparative GenomicsAnalyzing Patterns of Microbial Evolution Using the Mauve Genome Alignment System. 396:135-152.

Waisberg M, Lobo F, Cerqueira G, Passos L, Carvalho O, Franco G, El‐Sayed NM. 2007. Microarray analysis of gene expression induced by sexual contact in Schistosoma mansoni. BMC GenomicsBMC Genomics. 8

Lindsay B., Oundo J., Hossain M.A, Antonio M., Tamboura B., Walker A.W, Paulson J.N, Parkhill J., Omore R., Faruque A.S et al.. 2015. Microbiota that affect risk for shigellosis in children in low-income countries. Emerg Infect DisEmerg Infect Dis. 21:242-50.

Lindsay B., Oundo J., Hossain M.A, Antonio M., Tamboura B., Walker A.W, Paulson J.N, Parkhill J., Omore R., Faruque A.S et al.. 2015. Microbiota that affect risk for shigellosis in children in low-income countries. Emerg Infect DisEmerg Infect Dis. 21:242-50.

Lindsay B., Oundo J., Hossain M.A, Antonio M., Tamboura B., Walker A.W, Paulson J.N, Parkhill J., Omore R., Faruque A.S et al.. 2015. Microbiota that affect risk for shigellosis in children in low-income countries. Emerg Infect DisEmerg Infect Dis. 21:242-50.

Lindsay B., Oundo J., Hossain M.A, Antonio M., Tamboura B., Walker A.W, Paulson J.N, Parkhill J., Omore R., Faruque A.S et al.. 2015. Microbiota that affect risk for shigellosis in children in low-income countries. Emerg Infect DisEmerg Infect Dis. 21:242-50.

Field D, Garrity G, Gray T, Morrison N, Selengut J., Sterk P, Tatusova T, Thomson N, Allen MJ, Angiuoli SV et al.. 2008. The minimum information about a genome sequence (MIGS) specification. Nature biotechnologyNature biotechnology. 26

Field D, Garrity G, Gray T, Morrison N, Selengut J., Sterk P, Tatusova T, Thomson N, Allen MJ, Angiuoli SV et al.. 2008. The minimum information about a genome sequence (MIGS) specification. Nature biotechnologyNature biotechnology. 26

Sommer D., Delcher A., Salzberg S., Pop M.. 2007. Minimus: a fast, lightweight genome assembler. BMC bioinformaticsBMC Bioinformatics. 8

Sankaranarayanan A.C, Patro R., Turaga P., Varshney A, Chellappa R. 2009. Modeling and visualization of human activities for multicamera networks. EURASIP Journal on Image and Video ProcessingEURASIP Journal on Image and Video Processing. 2009

Li J, Nina B, Lan C, Mary C, Hannenhalli S, Xiaohong Z, P. Thomas C, Parmacek MS. 2012. Myocardin-like Protein (MKL)-2 Regulates TGF-beta Signaling. Embryonic Stem Cells and the Developing Vasculature DevelopmentEmbryonic Stem Cells and the Developing Vasculature Development.

N

Notebaart R.A, Szappanos B., Kintses B., Pal F., Gyorkei A., Bogos B., Lazar V., Spohn R., Bogos B., Wagner A. et al.. 2014. Network-level architecture and the evolutionary potential of underground metabolism. Proceedings of the National Academy of Sciences. 111(32):11762-11767.

Notebaart R.A, Szappanos B., Kintses B., Pal F., Gyorkei A., Bogos B., Lazar V., Spohn R., Bogos B., Wagner A. et al.. 2014. Network-level architecture and the evolutionary potential of underground metabolism. Proceedings of the National Academy of Sciences. 111(32):11762-11767.

Notebaart R.A, Szappanos B., Kintses B., Pal F., Gyorkei A., Bogos B., Lazar V., Spohn R., Bogos B., Wagner A. et al.. 2014. Network-level architecture and the evolutionary potential of underground metabolism. Proceedings of the National Academy of Sciences. 111(32):11762-11767.

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