scholarly journals Efficient and unique cobarcoding of second-generation sequencing reads from long DNA molecules enabling cost-effective and accurate sequencing, haplotyping, and de novo assembly

2019 ◽  
Vol 29 (5) ◽  
pp. 798-808 ◽  
Author(s):  
Ou Wang ◽  
Robert Chin ◽  
Xiaofang Cheng ◽  
Michelle Ka Yan Wu ◽  
Qing Mao ◽  
...  
Keyword(s):  
De Novo Assembly ◽  
Second Generation ◽  
De Novo ◽  
Cost Effective ◽  
Dna Molecules ◽  
Second Generation Sequencing ◽  
Generation Sequencing

scholarly journals Precision Medication of Tacrolimus Based on the Genotype by Using Second-generation Sequencing

2019 ◽  
Vol 4 (1) ◽  
Author(s):  
Yumeng Li
Keyword(s):  
Organ Transplantation ◽  
Second Generation ◽  
Low Cost ◽  
Single Nucleotide ◽  
Factors Affecting ◽  
Key Enzyme ◽  
Second Generation Sequencing ◽  
Degree Level ◽  
Generation Sequencing ◽  
Related Mortality

Organ transplantation has become a powerful strategy for the treatment of malignant diseases. Nevertheless, graft rejection is one of the main factors affecting graft survival after organ transplantation. Under this circumstance, the transplant-related mortality still keeps up. This invention includes the precise medication guidance of Tacrolimus (FK506) inapplicable population, against the side-effects of this drug. This invention, based on second-generation sequencing, has the advantages of relatively low cost and high sequencing throughput. During the design process, we collect the data of single nucleotide polymorphism (SNP) concerning the adverse drug reactions of Tacrolimus. Then we filter and summarize fifteen SNPs basing on importance degree (level >key enzyme>race). Thenceforth, after the process of analyzing the raw extract by operating BWA, Picard-tools, GATK, and Perl, we annotate SNPs by Annovar. Through this innovation, people can obtain further feedback on drugs that targets different genes in order to achieve the purpose of precision medication and minimizing the risks of misusing Tacrolimus.

scholarly journals Compression of next-generation sequencing reads aided by highly efficient de novo assembly

2012 ◽  
Vol 40 (22) ◽  
pp. e171-e171 ◽  
Author(s):  
Daniel C. Jones ◽  
Walter L. Ruzzo ◽  
Xinxia Peng ◽  
Michael G. Katze
Keyword(s):  
Next Generation Sequencing ◽  
De Novo Assembly ◽  
De Novo ◽  
Next Generation ◽  
Highly Efficient ◽  
Generation Sequencing

scholarly journals A case report of the differential diagnosis of Cellulosimicrobium cellulans-infected endocarditis combined with intracranial infection by conventional blood culture and second-generation sequencing

2020 ◽  
Vol 20 (1) ◽  
Author(s):  
Huifang Zhang ◽  
Chunyan He ◽  
Rui Tian ◽  
Ruilan Wang
Keyword(s):  
Second Generation ◽  
Human Infection ◽  
Sequencing Data ◽  
Case Presentation ◽  
Intracranial Infection ◽  
Cellulosimicrobium Cellulans ◽  
Two Samples ◽  
Second Generation Sequencing ◽  
Generation Sequencing

Abstract Background Cellulosimicrobium cellulans is a gram-positive filamentous bacterium found primarily in soil and sewage that rarely causes human infection, especially in previously healthy adults, but when it does, it often indicates a poor prognosis. Case presentation We report a case of endocarditis and intracranial infection caused by C. cellulans in a 52-year-old woman with normal immune function and no implants in vivo. The patient started with a febrile headache that progressed to impaired consciousness after 20 days, and she finally died after treatment with vancomycin combined with rifampicin. C. cellulans was isolated from her blood cultures for 3 consecutive days after her admission; however, there was only evidence of C. cellulans sequences for two samples in the second-generation sequencing data generated from her peripheral blood, which were ignored by the technicians. No C. cellulans bands were detected in her cerebrospinal fluid by second-generation sequencing. Conclusions Second-generation sequencing seems to have limitations for certain specific strains of bacteria.

scholarly journals Second Generation Sequencing of the Mesothelioma Tumor Genome

PLoS ONE ◽  
2010 ◽  
Vol 5 (5) ◽  
pp. e10612 ◽  
Author(s):  
Raphael Bueno ◽  
Assunta De Rienzo ◽  
Lingsheng Dong ◽  
Gavin J. Gordon ◽  
Colin F. Hercus ◽  
...  
Keyword(s):  
Second Generation ◽  
Second Generation Sequencing ◽  
Tumor Genome ◽  
Generation Sequencing

Advances in understanding cancer genomes through second-generation sequencing

2010 ◽  
Vol 11 (10) ◽  
pp. 685-696 ◽  
Author(s):  
Matthew Meyerson ◽  
Stacey Gabriel ◽  
Gad Getz
Keyword(s):  
Second Generation ◽  
Cancer Genomes ◽  
Second Generation Sequencing ◽  
Generation Sequencing

scholarly journals Exploring the Switchgrass Transcriptome Using Second-Generation Sequencing Technology

PLoS ONE ◽  
2012 ◽  
Vol 7 (3) ◽  
pp. e34225 ◽  
Author(s):  
Yixing Wang ◽  
Xin Zeng ◽  
Niranjani J. Iyer ◽  
Douglas W. Bryant ◽  
Todd C. Mockler ◽  
...  
Keyword(s):  
Second Generation ◽  
Sequencing Technology ◽  
Generation Sequencing Technology ◽  
Second Generation Sequencing ◽  
Generation Sequencing

Second-generation sequencing of forensic STRs using the Ion Torrent™ HID STR 10-plex and the Ion PGM™

2015 ◽  
Vol 14 ◽  
pp. 132-140 ◽  
Author(s):  
Sarah L. Fordyce ◽  
Helle Smidt Mogensen ◽  
Claus Børsting ◽  
Robert E. Lagacé ◽  
Chien-Wei Chang ◽  
...  
Keyword(s):  
Second Generation ◽  
Ion Torrent ◽  
Ion Pgm ◽  
Second Generation Sequencing ◽  
Generation Sequencing
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