TY - JOUR AU - Schluter, D. AU - Daubener, W. AU - Schares, G. AU - Gross, U. AU - Pleyer, U. AU - Luder, C. PY - 2014 DA - 2014// TI - Animals are key to human toxoplasmosis JO - Int J Med Microbiol VL - 304 UR - https://doi.org/10.1016/j.ijmm.2014.09.002 DO - 10.1016/j.ijmm.2014.09.002 ID - Schluter2014 ER - TY - JOUR AU - Hou, Z. F. AU - Su, S. J. AU - Liu, D. D. AU - Wang, L. L. AU - Jia, C. L. AU - Zhao, Z. X. PY - 2018 DA - 2018// TI - Prevalence, risk factors and genetic characterization of Toxoplasma gondii in sick pigs and stray cats in Jiangsu Province, eastern China JO - Infect Genet Evol VL - 60 UR - https://doi.org/10.1016/j.meegid.2018.02.007 DO - 10.1016/j.meegid.2018.02.007 ID - Hou2018 ER - TY - JOUR AU - Hakimi, M. A. AU - Cannella, D. PY - 2011 DA - 2011// TI - Apicomplexan parasites and subversion of the host cell microRNA pathway JO - Trends Parasitol VL - 27 UR - https://doi.org/10.1016/j.pt.2011.07.001 DO - 10.1016/j.pt.2011.07.001 ID - Hakimi2011 ER - TY - JOUR AU - Lee, R. C. AU - Ambros, V. PY - 2001 DA - 2001// TI - An extensive class of small RNAs in Caenorhabditis elegans JO - Science VL - 294 UR - https://doi.org/10.1126/science.1065329 DO - 10.1126/science.1065329 ID - Lee2001 ER - TY - JOUR AU - Ambros, V. PY - 2004 DA - 2004// TI - The functions of animal microRNAs JO - Nature VL - 431 UR - https://doi.org/10.1038/nature02871 DO - 10.1038/nature02871 ID - Ambros2004 ER - TY - JOUR AU - Deng, M. Q. AU - Lancto, C. A. AU - Abrahamsen, M. S. PY - 2004 DA - 2004// TI - Cryptosporidium parvum regulation of human epithelial cell gene expression JO - Int J Parasitol VL - 34 UR - https://doi.org/10.1016/j.ijpara.2003.10.001 DO - 10.1016/j.ijpara.2003.10.001 ID - Deng2004 ER - TY - JOUR AU - Prudencio, M. AU - Rodriguez, A. AU - Mota, M. M. PY - 2006 DA - 2006// TI - The silent path to thousands of merozoites: the Plasmodium liver stage JO - Nat Rev Microbiol VL - 4 UR - https://doi.org/10.1038/nrmicro1529 DO - 10.1038/nrmicro1529 ID - Prudencio2006 ER - TY - JOUR AU - Sturm, A. AU - Amino, R. AU - Sand, C. AU - Regen, T. AU - Retzlaff, S. AU - Rennenberg, A. PY - 2006 DA - 2006// TI - Manipulation of host hepatocytes by the malaria parasite for delivery into liver sinusoids JO - Science VL - 313 UR - https://doi.org/10.1126/science.1129720 DO - 10.1126/science.1129720 ID - Sturm2006 ER - TY - JOUR AU - McDonald, V. AU - Korbel, D. S. AU - Barakat, F. M. AU - Choudhry, N. AU - Petry, F. PY - 2013 DA - 2013// TI - Innate immune responses against Cryptosporidium parvum infection JO - Parasite Immunol VL - 35 UR - https://doi.org/10.1111/pim.12020 DO - 10.1111/pim.12020 ID - McDonald2013 ER - TY - JOUR AU - Leng, J. AU - Butcher, B. A. AU - Denkers, E. Y. PY - 2009 DA - 2009// TI - Dysregulation of macrophage signal transduction by Toxoplasma gondii: past progress and recent advances JO - Parasite Immunol VL - 31 UR - https://doi.org/10.1111/j.1365-3024.2009.01122.x DO - 10.1111/j.1365-3024.2009.01122.x ID - Leng2009 ER - TY - JOUR AU - Blader, I. J. AU - Manger, I. D. AU - Boothroyd, J. C. PY - 2001 DA - 2001// TI - Microarray analysis reveals previously unknown changes in Toxoplasma gondii-infected human cells JO - J Biol Chem VL - 276 UR - https://doi.org/10.1074/jbc.M100951200 DO - 10.1074/jbc.M100951200 ID - Blader2001 ER - TY - JOUR AU - Zeiner, G. M. AU - Norman, K. L. AU - Thomson, J. M. AU - Hammond, S. M. AU - Boothroyd, J. C. PY - 2010 DA - 2010// TI - Toxoplasma gondii infection specifically increases the levels of key host microRNAs JO - PLoS One VL - 5 UR - https://doi.org/10.1371/journal.pone.0008742 DO - 10.1371/journal.pone.0008742 ID - Zeiner2010 ER - TY - JOUR AU - Xiao, C. AU - Rajewsky, K. PY - 2009 DA - 2009// TI - MicroRNA control in the immune system: basic principles JO - Cell VL - 136 UR - https://doi.org/10.1016/j.cell.2008.12.027 DO - 10.1016/j.cell.2008.12.027 ID - Xiao2009 ER - TY - JOUR AU - Cai, Y. AU - Chen, H. AU - Jin, L. AU - You, Y. AU - Shen, J. PY - 2013 DA - 2013// TI - STAT3-dependent transactivation of miRNA genes following Toxoplasma gondii infection in macrophage JO - Parasit Vectors VL - 6 UR - https://doi.org/10.1186/1756-3305-6-356 DO - 10.1186/1756-3305-6-356 ID - Cai2013 ER - TY - JOUR AU - Pan, M. AU - Zhou, Y. AU - Wang, Y. AU - Li, L. AU - Song, Y. AU - Hou, L. PY - 2017 DA - 2017// TI - Screening and identification of the host proteins interacting with Toxoplasma gondii rhoptry protein ROP16 JO - Front Microbiol VL - 8 UR - https://doi.org/10.3389/fmicb.2017.02408 DO - 10.3389/fmicb.2017.02408 ID - Pan2017 ER - TY - JOUR AU - Melo, M. B. AU - Nguyen, Q. P. AU - Cordeiro, C. AU - Hassan, M. A. AU - Yang, N. AU - McKell, R. PY - 2013 DA - 2013// TI - Transcriptional analysis of murine macrophages infected with different Toxoplasma strains identifies novel regulation of host signaling pathways JO - PLoS Pathog VL - 9 UR - https://doi.org/10.1371/journal.ppat.1003779 DO - 10.1371/journal.ppat.1003779 ID - Melo2013 ER - TY - JOUR AU - Cannella, D. AU - Brenier-Pinchart, M. P. AU - Braun, L. AU - Rooyen, J. M. AU - Bougdour, A. AU - Bastien, O. PY - 2014 DA - 2014// TI - miR-146a and miR-155 delineate a MicroRNA fingerprint associated with Toxoplasma persistence in the host brain JO - Cell Rep VL - 6 UR - https://doi.org/10.1016/j.celrep.2014.02.002 DO - 10.1016/j.celrep.2014.02.002 ID - Cannella2014 ER - TY - JOUR AU - He, J. J. AU - Ma, J. AU - Wang, J. L. AU - Xu, M. J. AU - Zhu, X. Q. PY - 2016 DA - 2016// TI - Analysis of miRNA expression profiling in mouse spleen affected by acute Toxoplasma gondii infection JO - Infect Genet Evol VL - 37 UR - https://doi.org/10.1016/j.meegid.2015.11.005 DO - 10.1016/j.meegid.2015.11.005 ID - He2016 ER - TY - JOUR AU - Doleski, P. H. AU - Caten, M. V. AU - Passos, D. F. AU - Castilhos, L. G. AU - Leal, D. B. R. AU - Machado, V. S. PY - 2017 DA - 2017// TI - Toxoplasmosis treatment with diphenyl diselenide in infected mice modulates the activity of purinergic enzymes and reduces inflammation in spleen JO - Exp Parasitol VL - 181 UR - https://doi.org/10.1016/j.exppara.2017.07.001 DO - 10.1016/j.exppara.2017.07.001 ID - Doleski2017 ER - TY - JOUR AU - Montoya, J. G. AU - Liesenfeld, O. PY - 2004 DA - 2004// TI - Toxoplasmosis JO - Lancet VL - 363 UR - https://doi.org/10.1016/S0140-6736(04)16412-X DO - 10.1016/S0140-6736(04)16412-X ID - Montoya2004 ER - TY - JOUR AU - Shibahara, T. AU - Wilcox, J. N. AU - Couse, T. AU - Madara, J. L. PY - 2001 DA - 2001// TI - Characterization of epithelial chemoattractants for human intestinal intraepithelial lymphocytes JO - Gastroenterology VL - 120 UR - https://doi.org/10.1053/gast.2001.20904 DO - 10.1053/gast.2001.20904 ID - Shibahara2001 ER - TY - JOUR AU - Dwinell, M. B. AU - Lhyperlink, E. L. AU - Kagnoff, M. F. PY - 2001 DA - 2001// TI - Regulated production of interferon-inducible T-cell chemoattractants by human intestinalepithelial cells JO - Gastroenterology VL - 120 UR - https://doi.org/10.1053/gast.2001.20914 DO - 10.1053/gast.2001.20914 ID - Dwinell2001 ER - TY - JOUR AU - Hou, Z. F. AU - Zhou, Y. H. AU - Liu, D. D. AU - Su, S. J. AU - Zhao, Z. X. AU - Xu, J. J. PY - 2018 DA - 2018// TI - Genotyping and virulence analysis of Toxoplasma gondii isolates from a dead human fetus and dead pigs in Jiangsu province, Eastern China JO - Acta Parasitol VL - 63 UR - https://doi.org/10.1515/ap-2018-0046 DO - 10.1515/ap-2018-0046 ID - Hou2018 ER - TY - JOUR AU - Xu, M. J. AU - Zhou, D. H. AU - Nisbet, A. J. AU - Huang, S. Y. AU - Fan, Y. F. AU - Zhu, X. Q. PY - 2013 DA - 2013// TI - Characterization of mouse brain microRNAs after infection with cyst-forming Toxoplasma gondii JO - Parasit Vectors VL - 6 UR - https://doi.org/10.1186/1756-3305-6-154 DO - 10.1186/1756-3305-6-154 ID - Xu2013 ER - TY - JOUR AU - Pittman, K. J. AU - Aliota, M. T. AU - Knoll, L. J. PY - 2014 DA - 2014// TI - Dual transcriptional profiling of mice and Toxoplasma gondii during acute and chronic infection JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-806 DO - 10.1186/1471-2164-15-806 ID - Pittman2014 ER - TY - JOUR AU - Liston, A. AU - Linterman, M. AU - Lu, L. F. PY - 2010 DA - 2010// TI - MicroRNA in the adaptive immune system, in sickness and in health JO - J Clin Immunol VL - 30 UR - https://doi.org/10.1007/s10875-010-9378-5 DO - 10.1007/s10875-010-9378-5 ID - Liston2010 ER - TY - JOUR AU - Belver, L. AU - Papavasiliou, F. N. AU - Ramiro, A. R. PY - 2011 DA - 2011// TI - MicroRNA control of lymphocyte differentiation and function JO - Curr Opin Immunol VL - 23 UR - https://doi.org/10.1016/j.coi.2011.02.001 DO - 10.1016/j.coi.2011.02.001 ID - Belver2011 ER - TY - JOUR AU - Li, T. AU - Morgan, M. J. AU - Choksi, S. AU - Zhang, Y. AU - Kim, Y. S. AU - Liu, Z. G. PY - 2010 DA - 2010// TI - MicroRNAs modulate the noncanonical transcription factor NF-kappaB pathway by regulating expression of the kinase IKKalpha during macrophage differentiation JO - Nat Immunol VL - 11 UR - https://doi.org/10.1038/ni.1918 DO - 10.1038/ni.1918 ID - Li2010 ER - TY - JOUR AU - Stittrich, A. B. AU - Haftmann, C. AU - Sgouroudis, E. AU - Kuhl, A. A. AU - Hegazy, A. N. AU - Panse, I. PY - 2010 DA - 2010// TI - The microRNA miR-182 is induced by IL-2 and promotes clonal expansion of activated helper T lymphocytes JO - Nat Immunol VL - 11 UR - https://doi.org/10.1038/ni.1945 DO - 10.1038/ni.1945 ID - Stittrich2010 ER - TY - JOUR AU - O' Connell, R. M. AU - Rao, D. S. AU - Baltimore, D. PY - 2012 DA - 2012// TI - MicroRNA regulation of inflammatory responses JO - Annu Rev Immunol VL - 30 UR - https://doi.org/10.1146/annurev-immunol-020711-075013 DO - 10.1146/annurev-immunol-020711-075013 ID - O' Connell2012 ER - TY - JOUR AU - Sheedy, F. J. AU - Palsson-McDermott, E. AU - Hennessy, E. J. AU - Martin, C. AU - O’Leary, J. J. AU - Ruan, Q. PY - 2010 DA - 2010// TI - Negative regulation of TLR4 via targeting of the proinflammatory tumor suppressor PDCD4 by the microRNA miR-21 JO - Nat Immunol VL - 11 UR - https://doi.org/10.1038/ni.1828 DO - 10.1038/ni.1828 ID - Sheedy2010 ER - TY - JOUR AU - Mattes, J. AU - Collison, A. AU - Plank, M. AU - Phipps, S. AU - Foster, P. S. PY - 2009 DA - 2009// TI - Antagonism of microRNA-126 suppresses the effector function of TH2 cells and the development of allergic airways disease JO - Proc Natl Acad Sci U S A VL - 106 UR - https://doi.org/10.1073/pnas.0905063106 DO - 10.1073/pnas.0905063106 ID - Mattes2009 ER - TY - JOUR AU - Lu, L. F. AU - Boldin, M. P. AU - Chaudhry, A. AU - Lin, L. L. AU - Taganov, K. D. AU - Hanada, T. PY - 2010 DA - 2010// TI - Function of miR-146a in controlling Treg cell–mediated regulation of Th1 responses JO - Cell VL - 142 UR - https://doi.org/10.1016/j.cell.2010.08.012 DO - 10.1016/j.cell.2010.08.012 ID - Lu2010 ER - TY - JOUR AU - Cong, W. AU - Zhang, X. X. AU - He, J. J. AU - Li, F. C. AU - Elsheikha, H. M. AU - Zhu, X. Q. PY - 2017 DA - 2017// TI - Global miRNA expression profiling of domestic cat livers following acute Toxoplasma gondii infection JO - Oncotarget VL - 8 UR - https://doi.org/10.18632/oncotarget.16108 DO - 10.18632/oncotarget.16108 ID - Cong2017 ER - TY - JOUR AU - Gonzalez, V. AU - Combe, A. AU - David, V. AU - Malmquist, N. A. AU - Delorme, V. AU - Leroy, C. PY - 2009 DA - 2009// TI - Host cell entry by apicomplexa parasites requires actin polymerization in the host cell JO - Cell Host Microbe VL - 5 UR - https://doi.org/10.1016/j.chom.2009.01.011 DO - 10.1016/j.chom.2009.01.011 ID - Gonzalez2009 ER - TY - JOUR AU - Birbrair, A. AU - Frenette, P. S. PY - 2016 DA - 2016// TI - Niche heterogeneity in the bone marrow JO - Ann N Y Acad Sci VL - 1370 UR - https://doi.org/10.1111/nyas.13016 DO - 10.1111/nyas.13016 ID - Birbrair2016 ER - TY - JOUR AU - Ye, M. AU - Graf, T. PY - 2007 DA - 2007// TI - Early decisions in lymphoid development JO - Curr Opin Immunol VL - 19 UR - https://doi.org/10.1016/j.coi.2007.02.007 DO - 10.1016/j.coi.2007.02.007 ID - Ye2007 ER - TY - JOUR AU - Hisatomi, K. AU - Moriyama, Y. PY - 2000 DA - 2000// TI - Recombinant human erythropoietin stimulates production of interleukin 2 by whole blood cell cultures of hemodialysis patients JO - Artif Organs VL - 24 UR - https://doi.org/10.1046/j.1525-1594.2000.00811.x DO - 10.1046/j.1525-1594.2000.00811.x ID - Hisatomi2000 ER - TY - JOUR AU - Djurković-Djaković, O. AU - Djokić, V. AU - Vujanić, M. AU - Zivković, T. AU - Bobić, B. AU - Nikolić, A. PY - 2012 DA - 2012// TI - Kinetics of parasite burdens in blood and tissues during murine toxoplasmosis JO - Exp Parasitol VL - 131 UR - https://doi.org/10.1016/j.exppara.2012.05.006 DO - 10.1016/j.exppara.2012.05.006 ID - Djurković-Djaković2012 ER - TY - JOUR AU - Wilkinson, J. AU - Whitney, P. AU - Bi, K. PY - 2008 DA - 2008// TI - High throughput cellular assay for interrogating the B cell receptor signaling pathway JO - Cancer Res VL - 68 UR - https://doi.org/10.1158/0008-5472.CAN-07-6807 DO - 10.1158/0008-5472.CAN-07-6807 ID - Wilkinson2008 ER - TY - JOUR AU - Croft, M. AU - So, T. AU - Duan, W. AU - Soroosh, P. PY - 2009 DA - 2009// TI - The significance of OX40 and OX40L to T-cell biology and immune disease JO - Immunol Rev VL - 229 UR - https://doi.org/10.1111/j.1600-065X.2009.00766.x DO - 10.1111/j.1600-065X.2009.00766.x ID - Croft2009 ER - TY - JOUR AU - Kobata, T. AU - Jacquot, S. AU - Kozlowski, S. AU - Agematsu, K. AU - Schlossman, S. F. AU - Morimoto, C. PY - 1995 DA - 1995// TI - CD27-CD70 interactions regulate B-cell activation by T cells JO - Proc Natl Acad Sci U S A VL - 92 UR - https://doi.org/10.1073/pnas.92.24.11249 DO - 10.1073/pnas.92.24.11249 ID - Kobata1995 ER - TY - JOUR AU - Chiossone, L. AU - Chaix, J. AU - Fuseri, N. AU - Roth, C. AU - Vivier, E. AU - Walzer, T. PY - 2009 DA - 2009// TI - Maturation of mouse NK cells is a 4-stage developmental program JO - Blood VL - 113 UR - https://doi.org/10.1182/blood-2008-10-187179 DO - 10.1182/blood-2008-10-187179 ID - Chiossone2009 ER - TY - JOUR AU - Brunda, M. J. PY - 1994 DA - 1994// TI - Interleukin-12 JO - J Leukoc Biol VL - 55 UR - https://doi.org/10.1002/jlb.55.2.280 DO - 10.1002/jlb.55.2.280 ID - Brunda1994 ER - TY - JOUR AU - Palomo, J. AU - Dietrich, D. AU - Martin, P. AU - Palmer, G. AU - Gabay, C. PY - 2015 DA - 2015// TI - The interleukin (IL)-1 cytokine family - balance between agonists and antagonists in inflammatory diseases JO - Cytokine VL - 76 UR - https://doi.org/10.1016/j.cyto.2015.06.017 DO - 10.1016/j.cyto.2015.06.017 ID - Palomo2015 ER - TY - JOUR AU - Das, S. AU - Khader, S. PY - 2017 DA - 2017// TI - Yin and yang of interleukin-17 in host immunity to infection JO - F1000Res VL - 6 UR - https://doi.org/10.12688/f1000research.10862.1 DO - 10.12688/f1000research.10862.1 ID - Das2017 ER - TY - JOUR AU - Dupont, C. D. AU - Christian, D. A. AU - Hunter, C. A. PY - 2012 DA - 2012// TI - Immune response and immunopathology during toxoplasmosis JO - Semin Immunopathol VL - 34 UR - https://doi.org/10.1007/s00281-012-0339-3 DO - 10.1007/s00281-012-0339-3 ID - Dupont2012 ER - TY - JOUR AU - Aliberti, J. AU - Serhan, C. AU - Sher, A. PY - 2002 DA - 2002// TI - Parasite-induced lipoxin A4 is an endogenous regulator of IL-12 production and immunopathology in Toxoplasma gondii infection JO - J Exp Med VL - 196 UR - https://doi.org/10.1084/jem.20021183 DO - 10.1084/jem.20021183 ID - Aliberti2002 ER - TY - JOUR AU - Lv, W. AU - Duan, Q. AU - Wang, L. AU - Gong, Z. AU - Yang, F. AU - Song, Y. PY - 2015 DA - 2015// TI - Expression of B-cell-associated genes in peripheral blood mononuclear cells of patients with symptomatic pulmonary embolism JO - Mol Med Rep VL - 11 UR - https://doi.org/10.3892/mmr.2014.2978 DO - 10.3892/mmr.2014.2978 ID - Lv2015 ER - TY - JOUR AU - Li, Y. AU - Wang, J. AU - Yin, J. AU - Liu, X. AU - Yu, M. AU - Li, T. PY - 2017 DA - 2017// TI - Chromatin state dynamics during NK cell activation JO - Oncotarget VL - 8 ID - Li2017 ER - TY - JOUR AU - Garrido, V. V. AU - Dulgerian, L. R. AU - Stempin, C. C. AU - Cerban, F. M. PY - 2011 DA - 2011// TI - The increase in mannose receptor recycling favors arginase induction and Trypanosoma cruzi survival in macrophages JO - Int J Biol Sci VL - 7 UR - https://doi.org/10.7150/ijbs.7.1257 DO - 10.7150/ijbs.7.1257 ID - Garrido2011 ER - TY - JOUR AU - Lefevre, L. AU - Lugo-Villarino, G. AU - Meunier, E. AU - Valentin, A. AU - Olagnier, D. AU - Authier, H. PY - 2013 DA - 2013// TI - The C-type lectin receptors dectin-1, MR, and SIGNR3 contribute both positively and negatively to the macrophage response to Leishmania infantum JO - Immunity VL - 38 UR - https://doi.org/10.1016/j.immuni.2013.04.010 DO - 10.1016/j.immuni.2013.04.010 ID - Lefevre2013 ER - TY - JOUR AU - McGreal, E. AU - Miller, J. AU - Gordon, S. PY - 2005 DA - 2005// TI - Ligand recognition by antigen-presenting cell C-type lectin receptors JO - Curr Opin Immunol VL - 17 UR - https://doi.org/10.1016/j.coi.2004.12.001 DO - 10.1016/j.coi.2004.12.001 ID - McGreal2005 ER - TY - JOUR AU - Dunnen, J. AU - Gringhuis, S. I. AU - Geijtenbeek, T. B. PY - 2008 DA - 2008// TI - Innate signaling by the C-type lectin DC-SIGN dictates immune responses JO - Cancer Immunol Immunother VL - 58 UR - https://doi.org/10.1007/s00262-008-0615-1 DO - 10.1007/s00262-008-0615-1 ID - Dunnen2008 ER - TY - JOUR AU - Hirayama, A. AU - Joshita, S. AU - Kitahara, K. AU - Mukawa, K. AU - Suga, T. AU - Umemura, T. PY - 2016 DA - 2016// TI - Lymphocyte antigen 75 polymorphisms are associated with disease susceptibility and phenotype in Japanese patients with inflammatory bowel disease JO - Dis Markers VL - 2016 UR - https://doi.org/10.1155/2016/6485343 DO - 10.1155/2016/6485343 ID - Hirayama2016 ER - TY - JOUR AU - Homan, W. L. AU - Vercammen, M. AU - Braekeleer, J. AU - Verschueren, H. PY - 2000 DA - 2000// TI - Identification of a 200- to 300-fold repetitive 529 bp DNA fragment in Toxoplasma gondii, and its use for diagnostic and quantitative PCR JO - Int J Parasitol VL - 30 UR - https://doi.org/10.1016/S0020-7519(99)00170-8 DO - 10.1016/S0020-7519(99)00170-8 ID - Homan2000 ER - TY - JOUR AU - Hill, D. E. AU - Chirukandoth, S. AU - Dubey, J. P. AU - Lunney, J. K. AU - Gamble, H. R. PY - 2006 DA - 2006// TI - Comparison of detection methods for Toxoplasma gondii in naturally and experimentally infected swine JO - Vet Parasitol VL - 141 UR - https://doi.org/10.1016/j.vetpar.2006.05.008 DO - 10.1016/j.vetpar.2006.05.008 ID - Hill2006 ER - TY - JOUR AU - Ewing, B. AU - Green, P. PY - 1998 DA - 1998// TI - Base-calling of automated sequencer traces using phred. II. Error probabilities JO - Genome Res VL - 8 UR - https://doi.org/10.1101/gr.8.3.186 DO - 10.1101/gr.8.3.186 ID - Ewing1998 ER - TY - JOUR AU - Langmead, B. AU - Trapnell, C. AU - Pop, M. AU - Salzberg, S. L. PY - 2009 DA - 2009// TI - Ultrafast and memory-efficient alignment of short DNA sequences to the human genome JO - Genome Biol VL - 10 UR - https://doi.org/10.1186/gb-2009-10-3-r25 DO - 10.1186/gb-2009-10-3-r25 ID - Langmead2009 ER - TY - JOUR AU - Wen, M. AU - Shen, Y. AU - Shi, S. H. AU - Tang, T. PY - 2012 DA - 2012// TI - miREvo: an integrative microRNA evolutionary analysis platform for next-generation sequencing experiments JO - BMC Bioinformatics VL - 13 UR - https://doi.org/10.1186/1471-2105-13-140 DO - 10.1186/1471-2105-13-140 ID - Wen2012 ER - TY - JOUR AU - Friedlander, M. R. AU - Mackowiak, S. D. AU - Li, N. AU - Chen, W. AU - Rajewsky, N. PY - 2012 DA - 2012// TI - miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades JO - Nucleic Acids Res VL - 40 UR - https://doi.org/10.1093/nar/gkr688 DO - 10.1093/nar/gkr688 ID - Friedlander2012 ER - TY - JOUR AU - Zhou, L. AU - Chen, J. AU - Li, Z. AU - Li, X. AU - Hu, X. AU - Huang, Y. PY - 2010 DA - 2010// TI - Integrated profiling of microRNAs and mRNAs: microRNAs located on Xq27.3 associate with clear cell renal cell carcinoma JO - PLoS One VL - 5 UR - https://doi.org/10.1371/journal.pone.0015224 DO - 10.1371/journal.pone.0015224 ID - Zhou2010 ER - TY - JOUR AU - Storey, J. D. PY - 2003 DA - 2003// TI - The positive false discovery rate: a bayesian interpretation and the q-value JO - Ann Stat VL - 31 UR - https://doi.org/10.1214/aos/1074290335 DO - 10.1214/aos/1074290335 ID - Storey2003 ER - TY - JOUR AU - Enright, A. J. AU - John, B. AU - Gaul, U. AU - Tuschl, T. AU - Sander, C. AU - Marks, D. S. PY - 2003 DA - 2003// TI - MicroRNA targets in drosophila JO - Genome Biol VL - 5 UR - https://doi.org/10.1186/gb-2003-5-1-r1 DO - 10.1186/gb-2003-5-1-r1 ID - Enright2003 ER - TY - JOUR AU - Rehmsmeier, M. AU - Steffen, P. AU - Hochsmann, M. AU - Giegerich, R. PY - 2004 DA - 2004// TI - Fast and effective prediction of microRNA/target duplexes JO - RNA VL - 10 UR - https://doi.org/10.1261/rna.5248604 DO - 10.1261/rna.5248604 ID - Rehmsmeier2004 ER - TY - JOUR AU - Young, M. D. AU - Wakefield, M. J. AU - Smyth, G. K. AU - Oshlack, A. PY - 2010 DA - 2010// TI - Gene ontology analysis for RNA-seq: accounting for selection bias JO - Genome Biol VL - 11 UR - https://doi.org/10.1186/gb-2010-11-2-r14 DO - 10.1186/gb-2010-11-2-r14 ID - Young2010 ER - TY - JOUR AU - Mao, X. Z. AU - Cai, T. AU - Olyarchuk, J. G. AU - Wei, L. P. PY - 2005 DA - 2005// TI - Automated genome annotation and pathway identification using the KEGG Orthology (KO) as a controlled vocabulary JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti430 DO - 10.1093/bioinformatics/bti430 ID - Mao2005 ER - TY - JOUR AU - Kanehisa, M. AU - Sato, Y. AU - Kawashima, M. AU - Furumichi, M. AU - Tanabe, M. PY - 2016 DA - 2016// TI - KEGG as a reference resource for gene and protein annotation JO - Nucleic Acids Res VL - 44 UR - https://doi.org/10.1093/nar/gkv1070 DO - 10.1093/nar/gkv1070 ID - Kanehisa2016 ER - TY - JOUR AU - Kanehisa, M. AU - Tanabe, M. AU - Sato, Y. AU - Morishima, K. PY - 2017 DA - 2017// TI - KEGG: new perspectives on genomes, pathways, diseases and drugs JO - Nucleic Acids Res VL - 45 UR - https://doi.org/10.1093/nar/gkw1092 DO - 10.1093/nar/gkw1092 ID - Kanehisa2017 ER - TY - JOUR AU - Shannon, P. AU - Markiel, A. AU - Ozier, O. AU - Baliga, N. S. AU - Wang, J. T. AU - Ramage, D. PY - 2003 DA - 2003// TI - Cytoscape: a software environment for integrated models of biomolecular interaction networks JO - Genome Res VL - 13 UR - https://doi.org/10.1101/gr.1239303 DO - 10.1101/gr.1239303 ID - Shannon2003 ER - TY - JOUR AU - Livak, K. J. AU - Schmittgen, T. D. PY - 2001 DA - 2001// TI - Analysis of relative gene expression data using real-time quantitative PCR and the 2(T)(−Delta Delta C) method JO - Methods VL - 25 UR - https://doi.org/10.1006/meth.2001.1262 DO - 10.1006/meth.2001.1262 ID - Livak2001 ER -