Artículos de revistas sobre el tema "Short Read Mapping (SRM)"
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Chon, Alvin y Xiaoqiu Huang. "SRAMM: Short Read Alignment Mapping Metrics". International Journal on Bioinformatics & Biosciences 11, n.º 02 (30 de junio de 2021): 01–07. http://dx.doi.org/10.5121/ijbb.2021.11201.
Texto completoCline, Eliot, Nuttachat Wisittipanit, Tossapon Boongoen, Ekachai Chukeatirote, Darush Struss y Anant Eungwanichayapant. "Recalibration of mapping quality scores in Illumina short-read alignments improves SNP detection results in low-coverage sequencing data". PeerJ 8 (7 de diciembre de 2020): e10501. http://dx.doi.org/10.7717/peerj.10501.
Texto completoYang, Xiaohong, Yue Li, Yu Wei, Zhanlong Chen y Peng Xie. "Water Body Extraction from Sentinel-3 Image with Multiscale Spatiotemporal Super-Resolution Mapping". Water 12, n.º 9 (17 de septiembre de 2020): 2605. http://dx.doi.org/10.3390/w12092605.
Texto completoCanzar, Stefan y Steven L. Salzberg. "Short Read Mapping: An Algorithmic Tour". Proceedings of the IEEE 105, n.º 3 (marzo de 2017): 436–58. http://dx.doi.org/10.1109/jproc.2015.2455551.
Texto completoDeorowicz, Sebastian y Adam Gudyś. "Whisper 2: Indel-sensitive short read mapping". SoftwareX 14 (junio de 2021): 100692. http://dx.doi.org/10.1016/j.softx.2021.100692.
Texto completoDavid, Matei, Misko Dzamba, Dan Lister, Lucian Ilie y Michael Brudno. "SHRiMP2: Sensitive yet Practical Short Read Mapping". Bioinformatics 27, n.º 7 (28 de enero de 2011): 1011–12. http://dx.doi.org/10.1093/bioinformatics/btr046.
Texto completoSmith, A. D., W. Y. Chung, E. Hodges, J. Kendall, G. Hannon, J. Hicks, Z. Xuan y M. Q. Zhang. "Updates to the RMAP short-read mapping software". Bioinformatics 25, n.º 21 (7 de septiembre de 2009): 2841–42. http://dx.doi.org/10.1093/bioinformatics/btp533.
Texto completoGao, Lei, Cong Wu y Lin Liu. "AUSPP: A universal short-read pre-processing package". Journal of Bioinformatics and Computational Biology 17, n.º 06 (diciembre de 2019): 1950037. http://dx.doi.org/10.1142/s0219720019500379.
Texto completoHach, Faraz, Fereydoun Hormozdiari, Can Alkan, Farhad Hormozdiari, Inanc Birol, Evan E. Eichler y S. Cenk Sahinalp. "mrsFAST: a cache-oblivious algorithm for short-read mapping". Nature Methods 7, n.º 8 (agosto de 2010): 576–77. http://dx.doi.org/10.1038/nmeth0810-576.
Texto completoMartinez, Hector, Joaquin Tarraga, Ignacio Medina, Sergio Barrachina, Maribel Castillo, Joaquin Dopazo y Enrique S. Quintana-Orti. "Concurrent and Accurate Short Read Mapping on Multicore Processors". IEEE/ACM Transactions on Computational Biology and Bioinformatics 12, n.º 5 (1 de septiembre de 2015): 995–1007. http://dx.doi.org/10.1109/tcbb.2015.2392077.
Texto completoTran, Hong, Jacob Porter, Ming-an Sun, Hehuang Xie y Liqing Zhang. "Objective and Comprehensive Evaluation of Bisulfite Short Read Mapping Tools". Advances in Bioinformatics 2014 (15 de abril de 2014): 1–11. http://dx.doi.org/10.1155/2014/472045.
Texto completoHoutgast, Ernst Joachim, Vlad-Mihai Sima, Koen Bertels y Zaid Al-Ars. "Hardware acceleration of BWA-MEM genomic short read mapping for longer read lengths". Computational Biology and Chemistry 75 (agosto de 2018): 54–64. http://dx.doi.org/10.1016/j.compbiolchem.2018.03.024.
Texto completoWilton, Richard y Alexander S. Szalay. "Performance optimization in DNA short-read alignment". Bioinformatics 38, n.º 8 (9 de febrero de 2022): 2081–87. http://dx.doi.org/10.1093/bioinformatics/btac066.
Texto completoWood, David L. A., Qinying Xu, John V. Pearson, Nicole Cloonan y Sean M. Grimmond. "X-MATE: a flexible system for mapping short read data". Bioinformatics 27, n.º 4 (6 de enero de 2011): 580–81. http://dx.doi.org/10.1093/bioinformatics/btq698.
Texto completoPireddu, L., S. Leo y G. Zanetti. "SEAL: a distributed short read mapping and duplicate removal tool". Bioinformatics 27, n.º 15 (22 de junio de 2011): 2159–60. http://dx.doi.org/10.1093/bioinformatics/btr325.
Texto completoLinheiro, Raquel y John Archer. "Quantification of the effects of chimerism on read mapping, differential expression and annotation following short-read de novo assembly." F1000Research 11 (31 de enero de 2022): 120. http://dx.doi.org/10.12688/f1000research.108489.1.
Texto completoTewolde, Rediat, Timothy Dallman, Ulf Schaefer, Carmen L. Sheppard, Philip Ashton, Bruno Pichon, Matthew Ellington, Craig Swift, Jonathan Green y Anthony Underwood. "MOST: a modified MLST typing tool based on short read sequencing". PeerJ 4 (17 de agosto de 2016): e2308. http://dx.doi.org/10.7717/peerj.2308.
Texto completoHoutgast, Ernst Joachim, VladMihai Sima, Koen Bertels y Zaid AlArs. "An Efficient GPUAccelerated Implementation of Genomic Short Read Mapping with BWAMEM". ACM SIGARCH Computer Architecture News 44, n.º 4 (11 de enero de 2017): 38–43. http://dx.doi.org/10.1145/3039902.3039910.
Texto completoPorter, Jacob, Ming-an Sun, Hehuang Xie y Liqing Zhang. "Investigating bisulfite short-read mapping failure with hairpin bisulfite sequencing data". BMC Genomics 16, Suppl 11 (2015): S2. http://dx.doi.org/10.1186/1471-2164-16-s11-s2.
Texto completoCechova, Monika. "Probably Correct: Rescuing Repeats with Short and Long Reads". Genes 12, n.º 1 (31 de diciembre de 2020): 48. http://dx.doi.org/10.3390/genes12010048.
Texto completoProdanov, Timofey y Vikas Bansal. "Sensitive alignment using paralogous sequence variants improves long-read mapping and variant calling in segmental duplications". Nucleic Acids Research 48, n.º 19 (9 de octubre de 2020): e114-e114. http://dx.doi.org/10.1093/nar/gkaa829.
Texto completoCastells-Rufas, David, Santiago Marco-Sola, Juan Carlos Moure, Quim Aguado y Antonio Espinosa. "FPGA Acceleration of Pre-Alignment Filters for Short Read Mapping With HLS". IEEE Access 10 (2022): 22079–100. http://dx.doi.org/10.1109/access.2022.3153032.
Texto completoPandey, Ram Vinay y Christian Schlötterer. "DistMap: A Toolkit for Distributed Short Read Mapping on a Hadoop Cluster". PLoS ONE 8, n.º 8 (23 de agosto de 2013): e72614. http://dx.doi.org/10.1371/journal.pone.0072614.
Texto completoRuffalo, M., M. Koyuturk, S. Ray y T. LaFramboise. "Accurate estimation of short read mapping quality for next-generation genome sequencing". Bioinformatics 28, n.º 18 (7 de septiembre de 2012): i349—i355. http://dx.doi.org/10.1093/bioinformatics/bts408.
Texto completoGouil, Quentin y Andrew Keniry. "Latest techniques to study DNA methylation". Essays in Biochemistry 63, n.º 6 (22 de noviembre de 2019): 639–48. http://dx.doi.org/10.1042/ebc20190027.
Texto completoLimasset, Antoine, Jean-François Flot y Pierre Peterlongo. "Toward perfect reads: self-correction of short reads via mapping on de Bruijn graphs". Bioinformatics 36, n.º 5 (20 de febrero de 2019): 1374–81. http://dx.doi.org/10.1093/bioinformatics/btz102.
Texto completoMarin, Maximillian, Roger Vargas, Michael Harris, Brendan Jeffrey, L. Elaine Epperson, David Durbin, Michael Strong et al. "Benchmarking the empirical accuracy of short-read sequencing across the M. tuberculosis genome". Bioinformatics 38, n.º 7 (10 de enero de 2022): 1781–87. http://dx.doi.org/10.1093/bioinformatics/btac023.
Texto completoLee, Wan-Ping, Michael P. Stromberg, Alistair Ward, Chip Stewart, Erik P. Garrison y Gabor T. Marth. "MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping". PLoS ONE 9, n.º 3 (5 de marzo de 2014): e90581. http://dx.doi.org/10.1371/journal.pone.0090581.
Texto completoSouthgate, Joel A., Matthew J. Bull, Clare M. Brown, Joanne Watkins, Sally Corden, Benjamin Southgate, Catherine Moore y Thomas R. Connor. "Influenza classification from short reads with VAPOR facilitates robust mapping pipelines and zoonotic strain detection for routine surveillance applications". Bioinformatics 36, n.º 6 (6 de noviembre de 2019): 1681–88. http://dx.doi.org/10.1093/bioinformatics/btz814.
Texto completoWei, Po-Li, Ching-Sheng Hung, Yi-Wei Kao, Ying-Chin Lin, Cheng-Yang Lee, Tzu-Hao Chang, Ben-Chang Shia y Jung-Chun Lin. "Characterization of Fecal Microbiota with Clinical Specimen Using Long-Read and Short-Read Sequencing Platform". International Journal of Molecular Sciences 21, n.º 19 (26 de septiembre de 2020): 7110. http://dx.doi.org/10.3390/ijms21197110.
Texto completoFlouri, Tomas, Costas S. Iliopoulos, Solon P. Pissis y German Tischler. "Mapping Short Reads to a Genomic Sequence with Circular Structure". International Journal of Systems Biology and Biomedical Technologies 1, n.º 1 (enero de 2012): 26–34. http://dx.doi.org/10.4018/ijsbbt.2012010103.
Texto completoRichmond, Phillip Andrew, Alice Mary Kaye, Godfrain Jacques Kounkou, Tamar Vered Av-Shalom y Wyeth W. Wasserman. "Demonstrating the utility of flexible sequence queries against indexed short reads with FlexTyper". PLOS Computational Biology 17, n.º 3 (22 de marzo de 2021): e1008815. http://dx.doi.org/10.1371/journal.pcbi.1008815.
Texto completoChen, Yen-Lung, Bo-Yi Chang, Chia-Hsiang Yang y Tzi-Dar Chiueh. "A High-Throughput FPGA Accelerator for Short-Read Mapping of the Whole Human Genome". IEEE Transactions on Parallel and Distributed Systems 32, n.º 6 (1 de junio de 2021): 1465–78. http://dx.doi.org/10.1109/tpds.2021.3051011.
Texto completoZhao, Qiong-Yi, Jacob Gratten, Restuadi Restuadi y Xuan Li. "Mapping and differential expression analysis from short-read RNA-Seq data in model organisms". Quantitative Biology 4, n.º 1 (marzo de 2016): 22–35. http://dx.doi.org/10.1007/s40484-016-0060-7.
Texto completoAlser, Mohammed, Hasan Hassan, Hongyi Xin, Oğuz Ergin, Onur Mutlu y Can Alkan. "GateKeeper: a new hardware architecture for accelerating pre-alignment in DNA short read mapping". Bioinformatics 33, n.º 21 (31 de mayo de 2017): 3355–63. http://dx.doi.org/10.1093/bioinformatics/btx342.
Texto completoWatson, Simon J., Matthijs R. A. Welkers, Daniel P. Depledge, Eve Coulter, Judith M. Breuer, Menno D. de Jong y Paul Kellam. "Viral population analysis and minority-variant detection using short read next-generation sequencing". Philosophical Transactions of the Royal Society B: Biological Sciences 368, n.º 1614 (19 de marzo de 2013): 20120205. http://dx.doi.org/10.1098/rstb.2012.0205.
Texto completoKim, Youngho, Munseong Kang, Ju-Hui Jeong, Dae Woong Kang, Soo Jun Park y Jeong Seop Sim. "Reference Mapping Considering Swaps of Adjacent Bases". Applied Sciences 11, n.º 11 (29 de mayo de 2021): 5038. http://dx.doi.org/10.3390/app11115038.
Texto completoWeissensteiner, Matthias H., Andy W. C. Pang, Ignas Bunikis, Ida Höijer, Olga Vinnere-Petterson, Alexander Suh y Jochen B. W. Wolf. "Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications". Genome Research 27, n.º 5 (30 de marzo de 2017): 697–708. http://dx.doi.org/10.1101/gr.215095.116.
Texto completoSoto, Daniela C., Colin Shew, Mira Mastoras, Joshua M. Schmidt, Ruta Sahasrabudhe, Gulhan Kaya, Aida M. Andrés y Megan Y. Dennis. "Identification of Structural Variation in Chimpanzees Using Optical Mapping and Nanopore Sequencing". Genes 11, n.º 3 (4 de marzo de 2020): 276. http://dx.doi.org/10.3390/genes11030276.
Texto completoFeng, Yi, Leslie Y. Beh, Wei-Jen Chang y Laura F. Landweber. "SIGAR: Inferring Features of Genome Architecture and DNA Rearrangements by Split-Read Mapping". Genome Biology and Evolution 12, n.º 10 (13 de agosto de 2020): 1711–18. http://dx.doi.org/10.1093/gbe/evaa147.
Texto completoTárraga, Joaquín, Vicente Arnau, Héctor Martínez, Raul Moreno, Diego Cazorla, José Salavert-Torres, Ignacio Blanquer-Espert, Joaquín Dopazo y Ignacio Medina. "Acceleration of short and long DNA read mapping without loss of accuracy using suffix array". Bioinformatics 30, n.º 23 (20 de agosto de 2014): 3396–98. http://dx.doi.org/10.1093/bioinformatics/btu553.
Texto completoLee, Hayan y Michael C. Schatz. "Genomic dark matter: the reliability of short read mapping illustrated by the genome mappability score". Bioinformatics 28, n.º 16 (4 de julio de 2012): 2097–105. http://dx.doi.org/10.1093/bioinformatics/bts330.
Texto completoValiente-Mullor, Carlos, Beatriz Beamud, Iván Ansari, Carlos Francés-Cuesta, Neris García-González, Lorena Mejía, Paula Ruiz-Hueso y Fernando González-Candelas. "One is not enough: On the effects of reference genome for the mapping and subsequent analyses of short-reads". PLOS Computational Biology 17, n.º 1 (27 de enero de 2021): e1008678. http://dx.doi.org/10.1371/journal.pcbi.1008678.
Texto completoXie, Chao, Zhen Xuan Yeo, Marie Wong, Jason Piper, Tao Long, Ewen F. Kirkness, William H. Biggs et al. "Fast and accurate HLA typing from short-read next-generation sequence data with xHLA". Proceedings of the National Academy of Sciences 114, n.º 30 (3 de julio de 2017): 8059–64. http://dx.doi.org/10.1073/pnas.1707945114.
Texto completoJeske, Tim, Peter Huypens, Laura Stirm, Selina Höckele, Christine M. Wurmser, Anja Böhm, Cora Weigert et al. "DEUS: an R package for accurate small RNA profiling based on differential expression of unique sequences". Bioinformatics 35, n.º 22 (22 de junio de 2019): 4834–36. http://dx.doi.org/10.1093/bioinformatics/btz495.
Texto completoHamada, Michiaki, Edward Wijaya, Martin C. Frith y Kiyoshi Asai. "Probabilistic alignments with quality scores: an application to short-read mapping toward accurate SNP/indel detection". Bioinformatics 27, n.º 22 (5 de octubre de 2011): 3085–92. http://dx.doi.org/10.1093/bioinformatics/btr537.
Texto completoLiu, Yuan, Yongchao Ma, Evan Salsman, Frank A. Manthey, Elias M. Elias, Xuehui Li y Changhui Yan. "An enrichment method for mapping ambiguous reads to the reference genome for NGS analysis". Journal of Bioinformatics and Computational Biology 17, n.º 06 (diciembre de 2019): 1940012. http://dx.doi.org/10.1142/s0219720019400122.
Texto completoCoombe, Lauren, Vladimir Nikolić, Justin Chu, Inanc Birol y René L. Warren. "ntJoin: Fast and lightweight assembly-guided scaffolding using minimizer graphs". Bioinformatics 36, n.º 12 (20 de abril de 2020): 3885–87. http://dx.doi.org/10.1093/bioinformatics/btaa253.
Texto completoShen, Feichen y Jeffrey M. Kidd. "Rapid, Paralog-Sensitive CNV Analysis of 2457 Human Genomes Using QuicK-mer2". Genes 11, n.º 2 (29 de enero de 2020): 141. http://dx.doi.org/10.3390/genes11020141.
Texto completoSOGABE, Yoko y Tsutomu MARUYAMA. "A Fast and Accurate FPGA System for Short Read Mapping Based on Parallel Comparison on Hash Table". IEICE Transactions on Information and Systems E100.D, n.º 5 (2017): 1016–25. http://dx.doi.org/10.1587/transinf.2016edp7262.
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