Upinder Singh

Publications

• Nucleus-localized antisense small RNAs with 5'-polyphosphate termini regulate long term transcriptional gene silencing in Entamoeba histolytica G3 strain. Zhang H, Alramini H, Tran V, Singh U. J Biol Chem. 2011; 286 (52): 44467-79
• An Entamoeba histolytica rhomboid protease with atypical specificity cleaves a surface lectin involved in phagocytosis and immune evasion. Baxt LA, Baker RP, Singh U, Urban S. Genes Dev. 2008; 22 (12): 1636-46
• Small RNAs with 5'-polyphosphate termini associate with a Piwi-related protein and regulate gene expression in the single-celled eukaryote Entamoeba histolytica. Zhang H, Ehrenkaufer GM, Pompey JM, Hackney JA, Singh U. PLoS Pathog. 2008; 4 (11): e1000219
• Distinct distal gut microbiome diversity and composition in healthy children from Bangladesh and the United States. Lin A, Bik EM, Costello EK, Dethlefsen L, Haque R, Relman DA, Singh U. PLoS One. 2013; 8 (1): e53838
• Regulation of H2O2 stress-responsive genes through a novel transcription factor in the protozoan pathogen Entamoeba histolytica. Pearson RJ, Morf L, Singh U. J Biol Chem. 2013; 288 (6): 4462-74
• A detoxifying oxygen reductase in the anaerobic protozoan Entamoeba histolytica. Vicente JB, Tran V, Pinto L, Teixeira M, Singh U. Eukaryot Cell. 2012; 11 (9): 1112-8
• Entamoeba histolytica: a snapshot of current research and methods for genetic analysis. Morf L, Singh U. Curr Opin Microbiol. 2012; 15 (4): 469-75
• Oxidative stress resistance genes contribute to the pathogenic potential of the anaerobic protozoan parasite, Entamoeba histolytica. Rastew E, Vicente JB, Singh U. Int J Parasitol. 2012; 42 (11): 1007-15
• Transient and stable transfection in the protozoan parasite Entamoeba invadens. Ehrenkaufer GM, Singh U. Mol Biochem Parasitol. 2012; 184 (1): 59-62
• Antiparasitic therapy. Kappagoda S, Singh U, Blackburn BG. Mayo Clin Proc. 2011; 86 (6): 561-83
• RNA interference in Entamoeba histolytica: implications for parasite biology and gene silencing. Zhang H, Pompey JM, Singh U. Future Microbiol. 2011; 6 (1): 103-17
• Approaches to characterizing Entamoeba histolytica transcriptional regulation. Pearson RJ, Singh U. Cell Microbiol. 2010; 12 (12): 1681-90
• Downregulation of an Entamoeba histolytica rhomboid protease reveals roles in regulating parasite adhesion and phagocytosis. Baxt LA, Rastew E, Bracha R, Mirelman D, Singh U. Eukaryot Cell. 2010; 9 (8): 1283-93
• A developmentally regulated Myb domain protein regulates expression of a subset of stage-specific genes in Entamoeba histolytica. Ehrenkaufer GM, Hackney JA, Singh U. Cell Microbiol. 2009; 11 (6): 898-910
• A pseudouridine synthase homologue is critical to cellular differentiation in Toxoplasma gondii. Anderson MZ, Brewer J, Singh U, Boothroyd JC. Eukaryot Cell. 2009; 8 (3): 398-409
• Entamoeba histolytica modulates a complex repertoire of novel genes in response to oxidative and nitrosative stresses: implications for amebic pathogenesis. Vicente JB, Ehrenkaufer GM, Saraiva LM, Teixeira M, Singh U. Cell Microbiol. 2009; 11 (1): 51-69
• Recent insights into Entamoeba development: identification of transcriptional networks associated with stage conversion. Singh U, Ehrenkaufer GM. Int J Parasitol. 2009; 39 (1): 41-7
• Loss of dsRNA-based gene silencing in Entamoeba histolytica: implications for approaches to genetic analysis. MacFarlane RC, Singh U. Exp Parasitol. 2008; 119 (2): 296-300
• New insights into Entamoeba histolytica pathogenesis. Baxt LA, Singh U. Curr Opin Infect Dis. 2008; 21 (5): 489-94
• Transcriptional regulatory networks in Entamoeba histolytica. Ehrenkaufer GM, Singh U. Curr Drug Targets. 2008; 9 (11): 931-7
• Functional characterization of spliceosomal introns and identification of U2, U4, and U5 snRNAs in the deep-branching eukaryote Entamoeba histolytica. Davis CA, Brown MP, Singh U. Eukaryot Cell. 2007; 6 (6): 940-8
• Growth of the protozoan parasite Entamoeba histolytica in 5-azacytidine has limited effects on parasite gene expression. Ali IK, Ehrenkaufer GM, Hackney JA, Singh U. BMC Genomics. 2007: 8 7
• Identification of an Entamoeba histolytica serine-, threonine-, and isoleucine-rich protein with roles in adhesion and cytotoxicity. MacFarlane RC, Singh U. Eukaryot Cell. 2007; 6 (11): 2139-46
• Identification of developmentally regulated genes in Entamoeba histolytica: insights into mechanisms of stage conversion in a protozoan parasite. Ehrenkaufer GM, Haque R, Hackney JA, Eichinger DJ, Singh U. Cell Microbiol. 2007; 9 (6): 1426-44
• Identification of putative transcriptional regulatory networks in Entamoeba histolytica using Bayesian inference. Hackney JA, Ehrenkaufer GM, Singh U. Nucleic Acids Res. 2007; 35 (7): 2141-52
• Trichostatin A effects on gene expression in the protozoan parasite Entamoeba histolytica. Ehrenkaufer GM, Eichinger DJ, Singh U. BMC Genomics. 2007: 8 216
• Identification of differentially expressed genes in virulent and nonvirulent Entamoeba species: potential implications for amebic pathogenesis. MacFarlane RC, Singh U. Infect Immun. 2006; 74 (1): 340-51
• Impact of intestinal colonization and invasion on the Entamoeba histolytica transcriptome. Gilchrist CA, Houpt E, Trapaidze N, Fei Z, Crasta O, Asgharpour A, Evans C, Martino-Catt S, Baba DJ, Stroup S, Hamano S, Ehrenkaufer G, Okada M, Singh U, Nozaki T, Mann BJ, Petri WA. Mol Biochem Parasitol. 2006; 147 (2): 163-76
• Coding and noncoding genomic regions of Entamoeba histolytica have significantly different rates of sequence polymorphisms: implications for epidemiological studies. Bhattacharya D, Haque R, Singh U. J Clin Microbiol. 2005; 43 (9): 4815-9
• Comparative genomic hybridizations of Entamoeba strains reveal unique genetic fingerprints that correlate with virulence. Shah PH, MacFarlane RC, Bhattacharya D, Matese JC, Demeter J, Stroup SE, Singh U. Eukaryot Cell. 2005; 4 (3): 504-15
• Disruption of a locus encoding a nucleolar zinc finger protein decreases tachyzoite-to-bradyzoite differentiation in Toxoplasma gondii. Vanchinathan P, Brewer JL, Harb OS, Boothroyd JC, Singh U. Infect Immun. 2005; 73 (10): 6680-8
• Genomic DNA microarrays for Entamoeba histolytica: applications for use in expression profiling and strain genotyping. MacFarlane R, Bhattacharya D, Singh U. Exp Parasitol. 2005; 110 (3): 196-202
• The genome of the protist parasite Entamoeba histolytica. Loftus B, Anderson I, Davies R, Alsmark UC, Samuelson J, Amedeo P, Roncaglia P, Berriman M, Hirt RP, Mann BJ, Nozaki T, Suh B, Pop M, Duchene M, Ackers J, Tannich E, Leippe M, Hofer M, Bruchhaus I, Willhoeft U, Bhattacharya A, Chillingworth T, Churcher C, Hance Z, Harris B, Harris D, Jagels K, Moule S, Mungall K, Ormond D, Squares R, Whitehead S, Quail MA, Rabbinowitsch E, Norbertczak H, Price C, Wang Z, Guillén N, Gilchrist C, Stroup SE, Bhattacharya S, Lohia A, Foster PG, Sicheritz-Ponten T, Weber C, Singh U, Mukherjee C, El-Sayed NM, Petri WA, Clark CG, Embley TM, Barrell B, Fraser CM, Hall N. Nature. 2005; 433 (7028): 865-8
• Transcriptional profiling of Entamoeba histolytica trophozoites. MacFarlane RC, Shah PH, Singh U. Int J Parasitol. 2005; 35 (5): 533-42
• DNA content analysis on microarrays. Singh U, Shah PH, MacFarlane RC. Methods Mol Biol. 2004: 270 237-48
• DNA microarrays in parasitology: strengths and limitations. Boothroyd JC, Blader I, Cleary M, Singh U. Trends Parasitol. 2003; 19 (10): 470-6
• Context-dependent roles of the Entamoeba histolytica core promoter element GAAC in transcriptional activation and protein complex assembly. Singh U, Gilchrist CA, Schaenman JM, Rogers JB, Hockensmith JW, Mann BJ, Petri WA. Mol Biochem Parasitol. 2002; 120 (1): 107-16
• Genetic analysis of tachyzoite to bradyzoite differentiation mutants in Toxoplasma gondii reveals a hierarchy of gene induction. Singh U, Brewer JL, Boothroyd JC. Mol Microbiol. 2002; 44 (3): 721-33
• Toxoplasma gondii asexual development: identification of developmentally regulated genes and distinct patterns of gene expression. Cleary MD, Singh U, Blader IJ, Brewer JL, Boothroyd JC. Eukaryot Cell. 2002; 1 (3): 329-40
• Diagnosis and management of amebiasis. Singh, U., Petri, Jr, WA. Clinical Infectious Diseases.. 1999; (29): 1117-25
• The novel core promoter element GAAC in the hgl5 gene of Entamoeba histolytica is able to direct a transcription start site independent of TATA or Inr regions. Singh U, Rogers J.. Journal of Biological Chemistry.. 1998; (273): 21663-21668
• Transcription initiation is controlled by three core promoter elements in the hgl5 gene of the protozoan parasite Entamoeba histolytica. Singh U, Rogers JB, Mann BJ, Petri WA. Proc Natl Acad Sci U S A. 1997; 94 (16): 8812-7