Статті в журналах з теми "Basecalling"
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Ознайомтеся з топ-43 статей у журналах для дослідження на тему "Basecalling".
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Walther, D., G. Bartha, and M. Morris. "Basecalling with LifeTrace." Genome Research 11, no. 5 (May 1, 2001): 875–88. http://dx.doi.org/10.1101/gr.177901.
Повний текст джерелаBoufounos, Petros, Sameh El-Difrawy, and Dan Ehrlich. "Basecalling using hidden Markov models." Journal of the Franklin Institute 341, no. 1-2 (January 2004): 23–36. http://dx.doi.org/10.1016/j.jfranklin.2003.12.008.
Повний текст джерелаElbialy, Ali, M. A. El-Dosuky, and Ibrahim M. El-Henawy. "Quality of Third Generation Sequencing." Journal of Computational and Theoretical Nanoscience 17, no. 12 (December 1, 2020): 5205–9. http://dx.doi.org/10.1166/jctn.2020.9630.
Повний текст джерелаNapieralski, Adam, and Robert Nowak. "Basecalling Using Joint Raw and Event Nanopore Data Sequence-to-Sequence Processing." Sensors 22, no. 6 (March 15, 2022): 2275. http://dx.doi.org/10.3390/s22062275.
Повний текст джерелаLiang, Kuo-ching, Xiaodong Wang, and Dimitris Anastassiou. "Bayesian Basecalling for DNA Sequence Analysis Using Hidden Markov Models." IEEE/ACM Transactions on Computational Biology and Bioinformatics 4, no. 3 (July 2007): 430–40. http://dx.doi.org/10.1109/tcbb.2007.1027.
Повний текст джерелаBonet, Jose, Mandi Chen, Marc Dabad, Simon Heath, Abel Gonzalez-Perez, Nuria Lopez-Bigas, and Jens Lagergren. "DeepMP: a deep learning tool to detect DNA base modifications on Nanopore sequencing data." Bioinformatics 38, no. 5 (October 28, 2021): 1235–43. http://dx.doi.org/10.1093/bioinformatics/btab745.
Повний текст джерелаZhan, Y., and D. Kulp. "Model-P: a basecalling method for resequencing microarrays of diploid samples." Bioinformatics 21, Suppl 2 (September 1, 2005): ii182—ii189. http://dx.doi.org/10.1093/bioinformatics/bti1129.
Повний текст джерелаTonazzini, Anna, and Luigi Bedini. "Statistical analysis of electrophoresis time series for improving basecalling in DNA sequencing." International Journal of Signal and Imaging Systems Engineering 1, no. 1 (2008): 36. http://dx.doi.org/10.1504/ijsise.2008.017772.
Повний текст джерелаLou, Qian, and Lei Jiang. "BRAWL: A Spintronics-Based Portable Basecalling-in-Memory Architecture for Nanopore Genome Sequencing." IEEE Computer Architecture Letters 17, no. 2 (July 1, 2018): 241–44. http://dx.doi.org/10.1109/lca.2018.2882384.
Повний текст джерелаDumschott, Kathryn, Maximilian H.-W. Schmidt, Harmeet Singh Chawla, Rod Snowdon, and Björn Usadel. "Oxford Nanopore sequencing: new opportunities for plant genomics?" Journal of Experimental Botany 71, no. 18 (May 27, 2020): 5313–22. http://dx.doi.org/10.1093/jxb/eraa263.
Повний текст джерелаRahube, Teddie O., Andrew D. S. Cameron, Nicole A. Lerminiaux, Supriya V. Bhat, and Kathleen A. Alexander. "Globally Disseminated Multidrug Resistance Plasmids Revealed by Complete Assembly of Multidrug Resistant Escherichia coli and Klebsiella pneumoniae Genomes from Diarrheal Disease in Botswana." Applied Microbiology 2, no. 4 (November 11, 2022): 934–49. http://dx.doi.org/10.3390/applmicrobiol2040071.
Повний текст джерелаSenol Cali, Damla, Jeremie S. Kim, Saugata Ghose, Can Alkan, and Onur Mutlu. "Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions." Briefings in Bioinformatics 20, no. 4 (April 2, 2018): 1542–59. http://dx.doi.org/10.1093/bib/bby017.
Повний текст джерелаSater, Mohamad, Remy Schwab, Ian Herriott, Tim Farrell, and Miriam Huntley. "807. Same-day Transmission Analysis of Nosocomial Transmission Using Nanopore Whole Genome Sequencing." Open Forum Infectious Diseases 8, Supplement_1 (November 1, 2021): S497—S498. http://dx.doi.org/10.1093/ofid/ofab466.1003.
Повний текст джерелаBurns, Adam, David Robert Bruce, Pauline Robbe, Adele Timbs, Basile Stamatopoulos, Ruth Clifford, Maria Lopopolo, Duncan Parkes, Kate E. Ridout, and Anna Schuh. "Detection of Clinically Relevant Molecular Alterations in Chronic Lymphocytic Leukemia (CLL) By Nanopore Sequencing." Blood 132, Supplement 1 (November 29, 2018): 1847. http://dx.doi.org/10.1182/blood-2018-99-110948.
Повний текст джерелаHughes, Andrew E. O., Maureen C. Montgomery, Chang Liu, and Eric T. Weimer. "Quantification of Allele-Specific HLA Expression with Nanopore Long-Read Sequencing." Blood 136, Supplement 1 (November 5, 2020): 42–43. http://dx.doi.org/10.1182/blood-2020-140902.
Повний текст джерелаTan, Kar-Tong, Michael K. Slevin, Matthew Meyerson, and Heng Li. "Identifying and correcting repeat-calling errors in nanopore sequencing of telomeres." Genome Biology 23, no. 1 (August 26, 2022). http://dx.doi.org/10.1186/s13059-022-02751-6.
Повний текст джерелаNeumann, Don, Anireddy S. N. Reddy, and Asa Ben-Hur. "RODAN: a fully convolutional architecture for basecalling nanopore RNA sequencing data." BMC Bioinformatics 23, no. 1 (April 20, 2022). http://dx.doi.org/10.1186/s12859-022-04686-y.
Повний текст джерелаFerguson, Scott, Todd McLay, Rose L. Andrew, Jeremy J. Bruhl, Benjamin Schwessinger, Justin Borevitz, and Ashley Jones. "Species-specific basecallers improve actual accuracy of nanopore sequencing in plants." Plant Methods 18, no. 1 (December 14, 2022). http://dx.doi.org/10.1186/s13007-022-00971-2.
Повний текст джерелаZeng, Jingwen, Hongmin Cai, Hong Peng, Haiyan Wang, Yue Zhang, and Tatsuya Akutsu. "Causalcall: Nanopore Basecalling Using a Temporal Convolutional Network." Frontiers in Genetics 10 (January 20, 2020). http://dx.doi.org/10.3389/fgene.2019.01332.
Повний текст джерелаZhang, Yao-zhong, Arda Akdemir, Georg Tremmel, Seiya Imoto, Satoru Miyano, Tetsuo Shibuya, and Rui Yamaguchi. "Nanopore basecalling from a perspective of instance segmentation." BMC Bioinformatics 21, S3 (April 2020). http://dx.doi.org/10.1186/s12859-020-3459-0.
Повний текст джерелаNykrynova, Marketa, Roman Jakubicek, Vojtech Barton, Matej Bezdicek, Martina Lengerova, and Helena Skutkova. "Using deep learning for gene detection and classification in raw nanopore signals." Frontiers in Microbiology 13 (September 15, 2022). http://dx.doi.org/10.3389/fmicb.2022.942179.
Повний текст джерелаTavakoli, Sepideh, Mohammad Nabizadeh, Amr Makhamreh, Howard Gamper, Caroline A. McCormick, Neda K. Rezapour, Ya-Ming Hou, Meni Wanunu, and Sara H. Rouhanifard. "Semi-quantitative detection of pseudouridine modifications and type I/II hypermodifications in human mRNAs using direct long-read sequencing." Nature Communications 14, no. 1 (January 19, 2023). http://dx.doi.org/10.1038/s41467-023-35858-w.
Повний текст джерелаWick, Ryan R., Louise M. Judd, and Kathryn E. Holt. "Performance of neural network basecalling tools for Oxford Nanopore sequencing." Genome Biology 20, no. 1 (June 24, 2019). http://dx.doi.org/10.1186/s13059-019-1727-y.
Повний текст джерелаWeinmaier, Thomas, Rick Conzemius, Yehudit Bergman, Shawna Lewis, Emily B. Jacobs, Pranita D. Tamma, Arne Materna, Johannes Weinberger, Stephan Beisken, and Patricia J. Simner. "Validation and Application of Long-Read Whole-Genome Sequencing for Antimicrobial Resistance Gene Detection and Antimicrobial Susceptibility Testing." Antimicrobial Agents and Chemotherapy, December 19, 2022. http://dx.doi.org/10.1128/aac.01072-22.
Повний текст джерелаSilvestre-Ryan, Jordi, and Ian Holmes. "Pair consensus decoding improves accuracy of neural network basecallers for nanopore sequencing." Genome Biology 22, no. 1 (January 19, 2021). http://dx.doi.org/10.1186/s13059-020-02255-1.
Повний текст джерелаRausch, Tobias, Markus Hsi-Yang Fritz, Andreas Untergasser, and Vladimir Benes. "Tracy: basecalling, alignment, assembly and deconvolution of sanger chromatogram trace files." BMC Genomics 21, no. 1 (March 14, 2020). http://dx.doi.org/10.1186/s12864-020-6635-8.
Повний текст джерелаYou, Yupei, Michael B. Clark, and Heejung Shim. "NanoSplicer: Accurate identification of splice junctions using Oxford Nanopore sequencing." Bioinformatics, May 27, 2022. http://dx.doi.org/10.1093/bioinformatics/btac359.
Повний текст джерелаRask, Thomas S., Bent Petersen, Donald S. Chen, Karen P. Day, and Anders Gorm Pedersen. "Using expected sequence features to improve basecalling accuracy of amplicon pyrosequencing data." BMC Bioinformatics 17, no. 1 (April 22, 2016). http://dx.doi.org/10.1186/s12859-016-1032-7.
Повний текст джерелаChandak, Shubham, Kedar Tatwawadi, Srivatsan Sridhar, and Tsachy Weissman. "Impact of lossy compression of nanopore raw signal data on basecalling and consensus accuracy." Bioinformatics, December 16, 2020. http://dx.doi.org/10.1093/bioinformatics/btaa1017.
Повний текст джерелаSanderson, Nicholas D., Natalia Kapel, Gillian Rodger, Hermione Webster, Samuel Lipworth, Teresa L. Street, Timothy Peto, Derrick Crook, and Nicole Stoesser. "Comparison of R9.4.1/Kit10 and R10/Kit12 Oxford Nanopore flowcells and chemistries in bacterial genome reconstruction." Microbial Genomics 9, no. 1 (January 10, 2023). http://dx.doi.org/10.1099/mgen.0.000910.
Повний текст джерелаFang, Li, Qian Liu, Alex Mas Monteys, Pedro Gonzalez-Alegre, Beverly L. Davidson, and Kai Wang. "DeepRepeat: direct quantification of short tandem repeats on signal data from nanopore sequencing." Genome Biology 23, no. 1 (April 28, 2022). http://dx.doi.org/10.1186/s13059-022-02670-6.
Повний текст джерелаVereecke, Nick, Jade Bokma, Freddy Haesebrouck, Hans Nauwynck, Filip Boyen, Bart Pardon, and Sebastiaan Theuns. "High quality genome assemblies of Mycoplasma bovis using a taxon-specific Bonito basecaller for MinION and Flongle long-read nanopore sequencing." BMC Bioinformatics 21, no. 1 (November 11, 2020). http://dx.doi.org/10.1186/s12859-020-03856-0.
Повний текст джерелаDoroschak, Kathryn, Karen Zhang, Melissa Queen, Aishwarya Mandyam, Karin Strauss, Luis Ceze, and Jeff Nivala. "Rapid and robust assembly and decoding of molecular tags with DNA-based nanopore signatures." Nature Communications 11, no. 1 (November 3, 2020). http://dx.doi.org/10.1038/s41467-020-19151-8.
Повний текст джерелаBonenfant, Quentin, Laurent Noé, and Hélène Touzet. "Porechop_ABI: discovering unknown adapters in Oxford Nanopore Technology sequencing reads for downstream trimming." Bioinformatics Advances, November 21, 2022. http://dx.doi.org/10.1093/bioadv/vbac085.
Повний текст джерелаDe Vivo, Mattia, Hsin-Han Lee, Yu-Sin Huang, Niklas Dreyer, Chia-Ling Fong, Felipe Monteiro Gomes de Mattos, Dharmesh Jain, et al. "Utilisation of Oxford Nanopore sequencing to generate six complete gastropod mitochondrial genomes as part of a biodiversity curriculum." Scientific Reports 12, no. 1 (June 15, 2022). http://dx.doi.org/10.1038/s41598-022-14121-0.
Повний текст джерелаGoldsmith, Chloe, Jesús Rafael Rodríguez-Aguilera, Ines El-Rifai, Adrien Jarretier-Yuste, Valérie Hervieu, Olivier Raineteau, Pierre Saintigny, et al. "Low biological fluctuation of mitochondrial CpG and non-CpG methylation at the single-molecule level." Scientific Reports 11, no. 1 (April 13, 2021). http://dx.doi.org/10.1038/s41598-021-87457-8.
Повний текст джерелаLiu, Qian, Yu Hu, Andres Stucky, Li Fang, Jiang F. Zhong, and Kai Wang. "LongGF: computational algorithm and software tool for fast and accurate detection of gene fusions by long-read transcriptome sequencing." BMC Genomics 21, S11 (December 2020). http://dx.doi.org/10.1186/s12864-020-07207-4.
Повний текст джерелаMurigneux, Valentine, Leah W. Roberts, Brian M. Forde, Minh-Duy Phan, Nguyen Thi Khanh Nhu, Adam D. Irwin, Patrick N. A. Harris, et al. "MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction." BMC Genomics 22, no. 1 (June 25, 2021). http://dx.doi.org/10.1186/s12864-021-07767-z.
Повний текст джерелаReddy, Shishir, Ling-Hong Hung, Olga Sala-Torra, Jerald P. Radich, Cecilia CS Yeung, and Ka Yee Yeung. "A graphical, interactive and GPU-enabled workflow to process long-read sequencing data." BMC Genomics 22, no. 1 (August 23, 2021). http://dx.doi.org/10.1186/s12864-021-07927-1.
Повний текст джерелаBoostrom, Ian, Edward A. R. Portal, Owen B. Spiller, Timothy R. Walsh, and Kirsty Sands. "Comparing Long-Read Assemblers to Explore the Potential of a Sustainable Low-Cost, Low-Infrastructure Approach to Sequence Antimicrobial Resistant Bacteria With Oxford Nanopore Sequencing." Frontiers in Microbiology 13 (March 3, 2022). http://dx.doi.org/10.3389/fmicb.2022.796465.
Повний текст джерелаCuscó, Anna, Daniel Pérez, Joaquim Viñes, Norma Fàbregas, and Olga Francino. "Long-read metagenomics retrieves complete single-contig bacterial genomes from canine feces." BMC Genomics 22, no. 1 (May 6, 2021). http://dx.doi.org/10.1186/s12864-021-07607-0.
Повний текст джерелаGalanti, Lior, Dennis Shasha, and Kristin C. Gunsalus. "Pheniqs 2.0: accurate, high-performance Bayesian decoding and confidence estimation for combinatorial barcode indexing." BMC Bioinformatics 22, no. 1 (July 2, 2021). http://dx.doi.org/10.1186/s12859-021-04267-5.
Повний текст джерелаForghani, Fereidoun, Shaoting Li, Shaokang Zhang, David A. Mann, Xiangyu Deng, Henk C. den Bakker, and Francisco Diez-Gonzalez. "Salmonella enterica and Escherichia coli in Wheat Flour: Detection and Serotyping by a Quasimetagenomic Approach Assisted by Magnetic Capture, Multiple-Displacement Amplification, and Real-Time Sequencing." Applied and Environmental Microbiology 86, no. 13 (May 1, 2020). http://dx.doi.org/10.1128/aem.00097-20.
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