Academic literature on the topic '2nd generation sequencing'
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Journal articles on the topic "2nd generation sequencing"
Gut, Ivo G. "2nd generation DNA sequencing meets functional genomics." Aging 2, no. 9 (September 12, 2010): 541. http://dx.doi.org/10.18632/aging.100199.
Full textMahmoud, Medhat, Marek Zywicki, Tomasz Twardowski, and Wojciech M. Karlowski. "Efficiency of PacBio long read correction by 2nd generation Illumina sequencing." Genomics 111, no. 1 (January 2019): 43–49. http://dx.doi.org/10.1016/j.ygeno.2017.12.011.
Full textDagogo-Jack, Ibiayi, Marguerite Rooney, Rebecca Nagy, Subba Digumarthy, Emily Chin, Jennifer Ackil, Justin F. Gainor, Jessica Jiyeong Lin, Richard B. Lanman, and Alice Tsang Shaw. "Longitudinal analysis of plasma ALK mutations during treatment with next-generation ALK inhibitors." Journal of Clinical Oncology 37, no. 15_suppl (May 20, 2019): 9068. http://dx.doi.org/10.1200/jco.2019.37.15_suppl.9068.
Full textRoeper, Julia, Maria Netchaeva, Anne Christina Lueers, Ursula Stropiep, Cora Hallas, Markus Tiemann, Nicole Neemann, et al. "Impact on OS of 2nd and 3rd generation TKI in EGFR mt+ and ALK+ patients: Results of the NOWEL network." Journal of Clinical Oncology 35, no. 15_suppl (May 20, 2017): e20560-e20560. http://dx.doi.org/10.1200/jco.2017.35.15_suppl.e20560.
Full textJi, Hezhao, Neil Parkin, Feng Gao, Thomas Denny, Cheryl Jennings, Paul Sandstrom, and Rami Kantor. "External Quality Assessment Program for Next-Generation Sequencing-Based HIV Drug Resistance Testing: Logistical Considerations." Viruses 12, no. 5 (May 18, 2020): 556. http://dx.doi.org/10.3390/v12050556.
Full textSuryavanshi, Moushumi, Sakshi Mattoo, Sanjeev Kumar Sharma, Anurag Mehta, and Ullas Batra. "Primary and secondary resistance mechanisms in first, second and third generation tyrosine kinase inhibitors in EGFR mutant non-small cell lung cancer patients." Journal of Clinical Oncology 39, no. 15_suppl (May 20, 2021): e21142-e21142. http://dx.doi.org/10.1200/jco.2021.39.15_suppl.e21142.
Full textTsai, Cheng-Hong, Jih-Luh Tang, Feng-Ming Tien, Yuan-Yeh Kuo, Chien-Chin Lin, Mei-Hsuan Tseng, Yen-Ling Peng, et al. "Minimal Residual Disease Monitoring By Next-Generation Sequencing in Patients with Acute Myeloid Leukemia: MRD Positivity after First Consolidation Chemotherapy Can Better Predict Clinical Outcomes Than That after Induction Chemotherapy." Blood 134, Supplement_1 (November 13, 2019): 2698. http://dx.doi.org/10.1182/blood-2019-126870.
Full textSoverini, Simona, Caterina De Benedittis, Fausto Castagnetti, Gabriele Gugliotta, Manuela Mancini, Giorgina Specchia, Domenico Russo, et al. "BCR-ABL Mutations in Chronic Myeloid Leukemia (CML) Patients (pts) with Failure and Warning to First- and Second-Line Tyrosine Kinase Inhibitor (TKI) Therapy: What Is the Advantage of Next-Generation Sequencing (NGS) over Conventional Sequencing?" Blood 126, no. 23 (December 3, 2015): 346. http://dx.doi.org/10.1182/blood.v126.23.346.346.
Full textKubaski, Francyne, Alberto Burlina, Giulia Polo, Danilo Pereira, Zackary M. Herbst, Camilo Silva, Franciele B. Trapp, et al. "Experience of the NPC Brazil Network with a Comprehensive Program for the Screening and Diagnosis of Niemann-Pick Disease Type C." International Journal of Neonatal Screening 8, no. 3 (June 28, 2022): 39. http://dx.doi.org/10.3390/ijns8030039.
Full textSoverini, Simona, Caterina De Benedittis, Luca Zazzeroni, Katerina Machova Polakova, Fausto Castagnetti, Gabriele Gugliotta, Maria Teresa Bochicchio, et al. "In Chronic Myeloid Leukemia Patients on 2nd-Line Tyrosine Kinase Inhibitor Therapy, Deep Sequencing at the Time of Warning May Allow Sensitive Detection of Emerging BCR-ABL1 Mutants." Blood 124, no. 21 (December 6, 2014): 815. http://dx.doi.org/10.1182/blood.v124.21.815.815.
Full textDissertations / Theses on the topic "2nd generation sequencing"
Dal, Molin Alessandra. "Structural annotation of eukaryotic genomes in 2nd generation sequencing era." Doctoral thesis, 2016. http://hdl.handle.net/11562/940817.
Full textIn the last decade the increase in efficiency and decrease in cost of new sequencing techniques led to a growing amount of genomic sequences in publicdatabases. With this huge volume of sequences being generated from highthroughput sequencing projects, the requirement for providing accurate anddetailed genome annotations has never been greater. Structural genome annotation is the process of identifying structural features in a DNA sequence and classifying them based on their biological role. Computer programs are increasingly used to perform structural annotation since they meet the high-throughput demands of genome sequencing projects even if they are less accurate than manual gene annotation which remains the ‘golden-standard’ for evaluating annotation confidence and quality.The aim of this project is to meet the need of producing fast and accurate genome annotation by applying available computational means to different experimental cases, depending on the biological knowledge achieved so far and the quality of starting data. The contribution of different methods used to produce the final annotation has been analyzed along with the evaluation of results for the completeness of the study.The results obtained showed that the complexity of eukaryotic genomes greatly affects the annotation process; a big fraction of the genes in a genome sequence can be found mostly by homology to other known genes or proteins and by the use of ab initio predictors and species-specific evidence. The integration of multiple sources of annotation greatly improved the accuracy of the final genome annotations, anyway being not error free. Quality assessment of results and filtering of low confidence sequences together with manual revision are Always required to achieve higher accuracy.
Minio, Andrea. "Genome Assembly With 2nd Generation Sequencing Technologies: Definition of Best Experimental Design In Relation To Genomic Features." Doctoral thesis, 2015. http://hdl.handle.net/11562/915782.
Full textThe advent of the Second Generation of sequencing technologies deeply changed the process of generating data from DNA molecules, which has become cheaper and faster. The multiplicity of technologies and assembly tools available, each with different strengths and weaknesses, turns the choice of a proper experimental set-up when approaching the genome of a new species into a difficult task. In this work, multiple strategies have been adopted for reconstructing the genomes of different species. This has allowed profiling of the practices that best optimize costs and results according to the genetic characteristics of the subject of study. When dealing with bacterial organisms, the short genome length and a low complexity of the underlying sequence allows to obtain a high quality draft even when using only one standard Illumina library - regardless of the assembly procedure adopted. Fungal genomes show an increased length and a higher complexity when compared with prokaryotic organisms. Standard Illumina libraries are not sufficient to overcome the fragmentation issue of the draft sequence, and improving the computational assembly pipeline shows only a limited power in ameliorating the results. Additional Mate Pair sequencing data or PacBio long reads sequencing can be adequate alternatives, as they both lead to high quality assembly results at similar expenses. Long plant genomes show the highest complexity degree, with an elevated repetitive content and high heterozygosity rate. Standard Illumina libraries are not sufficient to overcome the fragmentation problem due to the limited insert size. Mate pair sequences greatly improve the results, with longer libraries spanning longer repeats and shorter ones improving the gap reconstruction. PacBio showed to be an effective solution to this problem, but given its high sequencing costs it is prohibitive to adopt this technology alone for reconstruction. Hybrid assembly is a possible alternative, combining an high coverage of Illumina short but cheap and reliable reads with a low coverage of longer but more erroneous PacBio reads. This solution has lower sequencing costs, but the quality of the results is limited by the coverage of long reads; moreover, the computational resources necessary to perform error correction and assembly are massively increased. -4- When approaching the reconstruction of a genome, therefore, multiple solutions are available – but it is the available knowledge of its characteristics that indicates the best combination of assembly tools and sequencing technologies to optimise both expenses and quality of the results.
Book chapters on the topic "2nd generation sequencing"
Andrews, Jonathan C., Michael F. Wangler, Shinya Yamamoto, and Jennifer E. Posey. "Advances in Next-Generation Sequencing Technologies and Functional Investigation of Candidate Variants in Neurological and Behavioral Disorders." In Encyclopedia of Behavioral Neuroscience, 2nd edition, 390–404. Elsevier, 2022. http://dx.doi.org/10.1016/b978-0-12-819641-0.00145-6.
Full textConference papers on the topic "2nd generation sequencing"
Liu, Xuan, Shing-Wan Choi, Thomas K. F. Wong, Tak-Wah Lam, and Siu-Ming Yiu. "Detection of novel tandem duplication with next-generation sequencing." In the 2nd ACM Conference. New York, New York, USA: ACM Press, 2011. http://dx.doi.org/10.1145/2147805.2147861.
Full textGao, Jingyang, Fei Qi, and Rui Guan. "Structural variation discovery with next-generation sequencing." In 2013 2nd International Symposium on Instrumentation & Measurement, Sensor Network and Automation (IMSNA). IEEE, 2013. http://dx.doi.org/10.1109/imsna.2013.6743374.
Full textJohnson, Daniel, Kun Wang, Carole L. Cramer, and Xiuzhen Huang. "Graph-based approach for gene markers and applications in next-generation sequencing data analysis." In the 2nd ACM Conference. New York, New York, USA: ACM Press, 2011. http://dx.doi.org/10.1145/2147805.2147886.
Full textGribchenko, E. S. "The study of transcriptomes of symbiotic tissue of pea using the third-generation sequencing technology Oxford Nanopore." In 2nd International Scientific Conference "Plants and Microbes: the Future of Biotechnology". PLAMIC2020 Organizing committee, 2020. http://dx.doi.org/10.28983/plamic2020.093.
Full textSakarya, Onur, and Heinz Breu. "Workshop: Gene fusion detection with short and medium length next generation sequencing." In 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences (ICCABS). IEEE, 2012. http://dx.doi.org/10.1109/iccabs.2012.6182676.
Full textMa, Xuezheng, Shuru Chen, Liping Zhang, Hong Deng, Lili Li, Fangji Yang, Pengfei Yang, Pengchen Yan, and Kongxin Hu. "Next generation sequencing and bioinformatic approaches to identify dengue viruses from non-invasive clinical samples." In 2017 2nd IEEE International Conference on Computational Intelligence and Applications (ICCIA). IEEE, 2017. http://dx.doi.org/10.1109/ciapp.2017.8167246.
Full textO'Neill, Rachel, Ion Mandoiu, Mazhar I. Khan, Craig Obergfell, Hongjun Wang, Andrew Bligh, Bassam Tork, Nicholas Mancuso, and Alexander Zelikovsky. "Workshop: Bioinformatics methods for reconstruction of Infectious Bronchitis Virus quasispecies from next generation sequencing data." In 2012 IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences (ICCABS). IEEE, 2012. http://dx.doi.org/10.1109/iccabs.2012.6182674.
Full text"Sequencing and iterative assembly of Ixiolirion tataricum plastome from total DNA using 2nd and 3rd generation HTS platforms." In Plant Genetics, Genomics, Bioinformatics, and Biotechnology. Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, 2019. http://dx.doi.org/10.18699/plantgen2019-131.
Full textSadikin, Rifki, Andria Arisal, Rofithah Omar, and Nur Hidayah Mazni. "Processing next generation sequencing data in map-reduce framework using hadoop-BAM in a computer cluster." In 2017 2nd International Conferences on Information Technology, Information Systems and Electrical Engineering (ICITISEE). IEEE, 2017. http://dx.doi.org/10.1109/icitisee.2017.8285542.
Full textLalinska-Volekova, Bronislava, Hana Majerova, Ivona Kautmanova, Tomas Farago, Dana Szaboova, and Jana Brcekova. "MICROBIAL COMPOSITION OF NATURAL Fe OXYHYDROXIDES AND ITS INFLUENCE ON ARSENIC AND ANTIMONY SORPTION." In 22nd SGEM International Multidisciplinary Scientific GeoConference 2022. STEF92 Technology, 2022. http://dx.doi.org/10.5593/sgem2022/5.1/s20.037.
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