TY - JOUR AU - Wang, W. C. AU - Lin, F. M. AU - Chang, W. C. AU - Lin, K. Y. AU - Huang, H. D. AU - Lin, N. S. PY - 2009 DA - 2009// TI - miRExpress: analyzing high-throughput sequencing data for profiling microRNA expression JO - BMC Bioinform VL - 10 UR - https://doi.org/10.1186/1471-2105-10-328 DO - 10.1186/1471-2105-10-328 ID - Wang2009 ER - TY - JOUR AU - Hackenberg, M. AU - Rodriguez-Ezpeleta, N. AU - Aransay, A. M. PY - 2011 DA - 2011// TI - miRanalyzer: an update on the detection and analysis of microRNAs in high-throughput sequencing experiments JO - Nucleic Acids Res VL - 39 UR - https://doi.org/10.1093/nar/gkr247 DO - 10.1093/nar/gkr247 ID - Hackenberg2011 ER - TY - JOUR AU - Hackenberg, M. AU - Sturm, M. AU - Langenberger, D. AU - Falcon-Perez, J. M. AU - Aransay, A. M. PY - 2009 DA - 2009// TI - miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments JO - Nucleic Acids Res VL - 37 UR - https://doi.org/10.1093/nar/gkp347 DO - 10.1093/nar/gkp347 ID - Hackenberg2009 ER - TY - JOUR AU - Pantano, L. AU - Estivill, X. AU - Marti, E. PY - 2010 DA - 2010// TI - SeqBuster, a bioinformatic tool for the processing and analysis of small RNAs datasets, reveals ubiquitous miRNA modifications in human embryonic cells JO - Nucleic Acids Res VL - 38 UR - https://doi.org/10.1093/nar/gkp1127 DO - 10.1093/nar/gkp1127 ID - Pantano2010 ER - TY - JOUR AU - Wu, J. AU - Liu, Q. AU - Wang, X. AU - Zheng, J. AU - Wang, T. AU - You, M. PY - 2013 DA - 2013// TI - mirTools 2.0 for non-coding RNA discovery, profiling, and functional annotation based on high-throughput sequencing JO - RNA Biol VL - 10 UR - https://doi.org/10.4161/rna.25193 DO - 10.4161/rna.25193 ID - Wu2013 ER - TY - JOUR AU - Zhu, E. AU - Zhao, F. AU - Xu, G. AU - Hou, H. AU - Zhou, L. AU - Li, X. PY - 2010 DA - 2010// TI - mirTools: microRNA profiling and discovery based on high-throughput sequencing JO - Nucleic Acids Res VL - 38 UR - https://doi.org/10.1093/nar/gkq393 DO - 10.1093/nar/gkq393 ID - Zhu2010 ER - TY - JOUR AU - Fasold, M. AU - Langenberger, D. AU - Binder, H. AU - Stadler, P. F. AU - Hoffmann, S. PY - 2011 DA - 2011// TI - DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments JO - Nucleic Acids Res VL - 38 ID - Fasold2011 ER - TY - JOUR AU - Zhao, W. AU - Liu, W. AU - Tian, D. AU - Tang, B. AU - Wang, Y. AU - Yu, C. PY - 2011 DA - 2011// TI - wapRNA: a web-based application for the processing of RNA sequences JO - Bioinformatics VL - 27 UR - https://doi.org/10.1093/bioinformatics/btr504 DO - 10.1093/bioinformatics/btr504 ID - Zhao2011 ER - TY - JOUR AU - Yuan, T. AU - Huang, X. AU - Dittmar, R. L. AU - Du, M. AU - Kohli, M. AU - Boardman, L. PY - 2014 DA - 2014// TI - eRNA: a graphic user interface-based tool optimized for large data analysis from high-throughput RNA sequencing JO - BMC Genom VL - 15 UR - https://doi.org/10.1186/1471-2164-15-176 DO - 10.1186/1471-2164-15-176 ID - Yuan2014 ER - TY - JOUR AU - Buermans, H. P. AU - Ariyurek, Y. AU - Ommen, G. AU - Dunnen, J. T. AU - t Hoen, P. A. PY - 2010 DA - 2010// TI - New methods for next generation sequencing based microRNA expression profiling JO - BMC Genom VL - 11 UR - https://doi.org/10.1186/1471-2164-11-716 DO - 10.1186/1471-2164-11-716 ID - Buermans2010 ER - TY - JOUR AU - Friedlander, M. R. AU - Chen, W. AU - Adamidi, C. AU - Maaskola, J. AU - Einspanier, R. AU - Knespel, S. PY - 2008 DA - 2008// TI - Discovering microRNAs from deep sequencing data using miRDeep JO - Nat Biotech VL - 26 UR - https://doi.org/10.1038/nbt1394 DO - 10.1038/nbt1394 ID - Friedlander2008 ER - TY - JOUR AU - Friedländer, 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 - Friedländer2012 ER - TY - JOUR AU - Zhang, Y. AU - Xu, B. AU - Yang, Y. AU - Ban, R. AU - Zhang, H. AU - Jiang, X. PY - 2012 DA - 2012// TI - CPSS: a computational platform for the analysis of small RNA deep sequencing data JO - Bioinformatics VL - 28 UR - https://doi.org/10.1093/bioinformatics/bts282 DO - 10.1093/bioinformatics/bts282 ID - Zhang2012 ER - TY - JOUR AU - Muller, S. AU - Rycak, L. AU - Winter, P. AU - Kahl, G. AU - Koch, I. AU - Rotter, B. PY - 2013 DA - 2013// TI - omiRas: a Web server for differential expression analysis of miRNAs derived from small RNA-Seq data JO - Bioinformatics VL - 29 UR - https://doi.org/10.1093/bioinformatics/btt457 DO - 10.1093/bioinformatics/btt457 ID - Muller2013 ER - TY - JOUR AU - Seguin, J. AU - Otten, P. AU - Baerlocher, L. AU - Farinelli, L. AU - Pooggin, M. M. PY - 2014 DA - 2014// TI - MISIS: a bioinformatics tool to view and analyze maps of small RNAs derived from viruses and genomic loci generating multiple small RNAs JO - J Virol Methods VL - 195 UR - https://doi.org/10.1016/j.jviromet.2013.10.013 DO - 10.1016/j.jviromet.2013.10.013 ID - Seguin2014 ER - TY - JOUR AU - Leidinger, P. AU - Backes, C. AU - Deutscher, S. AU - Schmitt, K. AU - Mueller, S. C. AU - Frese, K. PY - 2013 DA - 2013// TI - A blood based 12-miRNA signature of Alzheimer disease patients JO - Genome Biol VL - 14 UR - https://doi.org/10.1186/gb-2013-14-7-r78 DO - 10.1186/gb-2013-14-7-r78 ID - Leidinger2013 ER - TY - JOUR AU - Keller, A. AU - Leidinger, P. AU - Steinmeyer, F. AU - Stahler, C. AU - Franke, A. AU - Hemmrich-Stanisak, G. PY - 2014 DA - 2014// TI - Comprehensive analysis of microRNA profiles in multiple sclerosis including next-generation sequencing JO - Mult Scler VL - 20 UR - https://doi.org/10.1177/1352458513496343 DO - 10.1177/1352458513496343 ID - Keller2014 ER - TY - JOUR AU - Londin, E. AU - Loher, P. AU - Telonis, A. G. AU - Quann, K. AU - Clark, P. AU - Jing, Y. PY - 2015 DA - 2015// TI - Analysis of 13 cell types reveals evidence for the expression of numerous novel primate- and tissue-specific microRNAs JO - Proc Natl Acad Sci USA VL - 112 UR - https://doi.org/10.1073/pnas.1420955112 DO - 10.1073/pnas.1420955112 ID - Londin2015 ER -