Publications

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Nagarajan N, Pop M..  2013.  Sequence assembly demystified. Nature Reviews GeneticsNature Reviews Genetics. 14
Nagarajan N., Pop M..  2010.  Sequencing and genome assembly using next-generation technologies. Methods Mol. BiolMethods Mol. Biol. 673
Nagarajan N, Read TD, Pop M..  2008.  Scaffolding and Validation of Bacterial Genome Assemblies Using Optical Restriction Maps. BioinformaticsBioinformaticsBioinformaticsBioinformatics. 24
Nagengast AA, Stitzinger SM, Tseng C-H, Mount SM, Salz HK.  2003.  Sex-lethal splicing autoregulation in vivo: interactions between SEX-LETHAL, the U1 snRNP and U2AF underlie male exon skipping.. Development. 130(3):463-71.
Neel M.C, Cummings MP.  2004.  Section-level relationships of North American ıt Agalinis (Orobanchaceae) based on DNA sequence analysis of three chloroplast gene regions. BMC Evol BiolBMC Evol Biol. 4
Nickerson ML, Im KM, Misner KJ, Tan W, Lou H, Gold B, Wells DW, Bravo HCorrada, Fredrikson KM, Harkins TT et al..  2013.  Somatic alterations contributing to metastasis of a castration-resistant prostate cancer. Human mutationHuman mutation. 34
Nierman WC, DeShazer D, H. Kim S, Tettelin H, Nelson KE, Feldblyum T, Ulrich RL, Ronning CM, Brinkac LM, Daugherty SC et al..  2004.  Structural flexibility in the Burkholderia mallei genome. Proceedings of the National Academy of Sciences of the United States of AmericaProceedings of the National Academy of Sciences of the United States of America. 101
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Oberhardt MA, Zarecki R, Reshef L, Xia F, Duran-Frigola M, Schreiber R, Henry CS, Ben-Tal N, Dwyer DJ, Gophna U et al..  2016.  Systems-Wide Prediction of Enzyme Promiscuity Reveals a New Underground Alternative Route for Pyridoxal 5'-Phosphate Production in E. coli.. PLoS Comput Biol. 12(1):e1004705.
Okrah K, Bravo HCorrada.  2015.  Shape analysis of high-throughput transcriptomics experiment data.. Biostatistics. 16(4):627-40.
P
Padgett RA, Mount SM, Steitz JA, Sharp PA.  1983.  Splicing of messenger RNA precursors is inhibited by antisera to small nuclear ribonucleoprotein.. Cell. 35(1):101-7.
Patro R., Ip CYiu, Bista S., Varshney A.  2011.  Social Snapshot: A System for Temporally Coupled Social Photography. Computer Graphics and Applications, IEEEComputer Graphics and Applications, IEEE. 31
Patro R., Ip C.Y, Varshney A, Hagen H..  2010.  Saliency Guided Summarization of Molecular Dynamics Simulations. Scientific Visualization: Advanced ConceptsScientific Visualization: Advanced Concepts. 1
Patro R, Mount SM, Kingsford C.  2014.  Sailfish enables alignment-free isoform quantification from RNA-seq reads using lightweight algorithms.. Nat Biotechnol. 32(5):462-4.
Patro R., Dickerson J.P, Bista S., Gupta S.K, Varshney A.  2012.  Speeding Up Particle Trajectory Simulations under Moving Force Fields using GPUs. Journal of Computing and Information Science in EngineeringJournal of Computing and Information Science in Engineering.
Pepling M, Mount SM.  1990.  Sequence of a cDNA from the Drosophila melanogaster white gene.. Nucleic Acids Res. 18(6):1633.
Pop M..  2004.  Shotgun Sequence Assembly. Advances in ComputersAdvances in Computers. Volume 60
Pozniak Y, Balint-Lahat N, Rudolph JDaniel, Lindskog C, Katzir R, Avivi C, Pontén F, Ruppin E, Barshack I, Geiger T.  2016.  System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.. Cell Syst. 2(3):172-84.
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Revett K., Ruppin E., Goodall S., Reggia JA.  1998.  Spreading depression in focal ischemia: A computational study. Journal of Cerebral Blood Flow & MetabolismJournal of Cerebral Blood Flow & Metabolism. 18
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Salzberg SL, Hotopp JCD, Delcher AL, Pop M., Smith DR, Eisen MB, Nelson WC.  2005.  Serendipitous discovery of Wolbachia genomes in multiple Drosophila species. Genome BiologyGenome Biology. 6
Selengut JD, Rusch DB, Haft DH.  2010.  Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function.. BMC Bioinformatics. 11:52.
Selengut J., Rusch DB, Haft DH.  2010.  Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function. BMC bioinformaticsBMC Bioinformatics. 11
Steitz JA, Berg C, Gottlieb E, Hardin JA, Hashimoto C, Hendrick JP, Hinterberger M, Krikeles M, Lerner MR, Mount SM.  1982.  Structure and function of small ribonucleoproteins from eukaryotic cells.. Princess Takamatsu Symp. 12:101-7.
Steitz JA, Wolin SL, Rinke J, Pettersson I, Mount SM, Lerner EA, Hinterberger M, Gottlieb E.  1983.  Small ribonucleoproteins from eukaryotes: structures and roles in RNA biogenesis.. Cold Spring Harb Symp Quant Biol. 47 Pt 2:893-900.
O. Stine C, Alam M, Tang L, G. Nair B, A. Siddique K, Faruque SM, Huq A, Colwell RR, R. Sack B, J. Morris G.  2008.  Seasonal Cholera from Multiple Small Outbreaks, Rural Bangladesh. Emerging Infectious DiseasesEmerg Infect DisEmerging Infectious DiseasesEmerg Infect Dis. 14
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Venter J.C.  2002.  Sequencing the human genome. Proceedings of the sixth annual international conference on Computational biology.

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