Publications

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Filters: Keyword is Gene Expression Profiling  [Clear All Filters]
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A
Attardo GM, Strickler-Dinglasan P, Perkin SAH, Caler E, Bonaldo MF, Soares MB, El-Sayeed N, Aksoy S.  2006.  Analysis of fat body transcriptome from the adult tsetse fly, Glossina morsitans morsitans.. Insect Mol Biol. 15(4):411-24.
B
Bartholomeu DC, Cerqueira GC, Leão ACarolina A, daRocha WD, Pais FS, Macedo C, Djikeng A, Teixeira SMR, El-Sayed NM.  2009.  Genomic organization and expression profile of the mucin-associated surface protein (masp) family of the human pathogen Trypanosoma cruzi.. Nucleic Acids Res. 37(10):3407-17.
Bloom JS, Khan Z, Kruglyak L, Singh M, Caudy AA.  2009.  Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays.. BMC Genomics. 10:221.
Boonyaratanakornkit BB, Simpson AJ, Whitehead TA, Fraser CM, el-Sayed NMA, Clark DS.  2005.  Transcriptional profiling of the hyperthermophilic methanarchaeon Methanococcus jannaschii in response to lethal heat and non-lethal cold shock.. Environ Microbiol. 7(6):789-97.
Bravo HCorrada, Pihur V, McCall M, Irizarry RA, Leek JT.  2012.  Gene expression anti-profiles as a basis for accurate universal cancer signatures. BMC bioinformaticsBMC Bioinformatics. 13
H
Haft DH, Selengut J., Brinkac LM, Zafar N, White O.  2005.  Genome Properties: a system for the investigation of prokaryotic genetic content for microbiology, genome annotation and comparative genomics. Bioinformatics (Oxford, England)Bioinformatics (Oxford, England). 21
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HCorrada, Davis S, Gatto L, Girke T et al..  2015.  Orchestrating high-throughput genomic analysis with Bioconductor.. Nat Methods. 12(2):115-21.
K
Khan Z, Bloom JS, Amini S, Singh M, Perlman DH, Caudy AA, Kruglyak L.  2012.  Quantitative measurement of allele-specific protein expression in a diploid yeast hybrid by LC-MS.. Mol Syst Biol. 8:602.
Kim R., Kulkarni P., Hannenhalli S.  2013.  Derepression of Cancer/testis antigens in cancer is associated with distinct patterns of DNA hypomethylation. BMC CancerBMC CancerBMC Cancer. 13:144.
Korpal M, Ell BJ, Buffa FM, Ibrahim T, Blanco MA, Celià-Terrassa T, Mercatali L, Khan Z, Goodarzi H, Hua Y et al..  2011.  Direct targeting of Sec23a by miR-200s influences cancer cell secretome and promotes metastatic colonization.. Nat Med. 17(9):1101-8.
S
Savage AF, Cerqueira GC, Regmi S, Wu Y, Sayed NMEl, Aksoy S.  2012.  Transcript expression analysis of putative Trypanosoma brucei GPI-anchored surface proteins during development in the tsetse and mammalian hosts.. PLoS Negl Trop Dis. 6(6):e1708.
Selengut JD, Haft DH.  2010.  Unexpected abundance of coenzyme F(420)-dependent enzymes in Mycobacterium tuberculosis and other actinobacteria.. J Bacteriol. 192(21):5788-98.
Selengut J., Haft DH.  2010.  Unexpected abundance of coenzyme F(420)-dependent enzymes in Mycobacterium tuberculosis and other actinobacteria. Journal of bacteriologyJournal of bacteriology. 192
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
Severance S, Rajagopal A, Rao AU, Cerqueira GC, Mitreva M, El-Sayed NM, Krause M, Hamza I.  2010.  Genome-wide analysis reveals novel genes essential for heme homeostasis in Caenorhabditis elegans.. PLoS Genet. 6(7):e1001044.
Shan L, Yang H-C, S. Rabi A, Bravo HCorrada, Shroff NS, Irizarry RA, Zhang H, Margolick JB, Siliciano JD, Siliciano RF.  2011.  Influence of host gene transcription level and orientation on HIV-1 latency in a primary-cell model. Journal of virologyJournal of virology. 85
Shi W, Wahba G, Irizarry RA, Bravo HCorrada, Wright SJ.  2012.  The partitioned LASSO-patternsearch algorithm with application to gene expression data. BMC bioinformaticsBMC Bioinformatics. 13