Literature DB >> 27722982

Clinical Applications of Next-Generation Sequencing in Cancer Diagnosis.

Leila Sabour1, Maryam Sabour1, Saeid Ghorbian2.   

Abstract

With the advancement and improvement of new sequencing technology, next-generation sequencing (NGS) has been applied increasingly in cancer genomics research fields. More recently, NGS has been adopted in clinical oncology to advance personalized treatment of cancer. NGS is utilized to novel diagnostic and rare cancer mutations, detection of translocations, inversions, insertions and deletions, detection of copy number variants, detect familial cancer mutation carriers, provide the molecular rationale for appropriate targeted, therapeutic and prognostic. NGS holds many advantages, such as the ability to fully sequence all types of mutations for a large number of genes (hundreds to thousands) and the sensitivity, speed in a single test at a relatively low cost compared to be other sequencing modalities. Here we described the technology, methods and applications that can be immediately considered and some of the challenges that lie ahead.

Entities:  

Keywords:  Cancer; Clinical practice; Diagnosis; NGS; Next-generation sequencing

Mesh:

Year:  2016        PMID: 27722982     DOI: 10.1007/s12253-016-0124-z

Source DB:  PubMed          Journal:  Pathol Oncol Res        ISSN: 1219-4956            Impact factor:   3.201


  87 in total

1.  Sensitive mutation detection in heterogeneous cancer specimens by massively parallel picoliter reactor sequencing.

Authors:  Roman K Thomas; Elizabeth Nickerson; Jan F Simons; Pasi A Jänne; Torstein Tengs; Yuki Yuza; Levi A Garraway; Thomas LaFramboise; Jeffrey C Lee; Kinjal Shah; Keith O'Neill; Hidefumi Sasaki; Neal Lindeman; Kwok-Kin Wong; Ana M Borras; Edward J Gutmann; Konstantin H Dragnev; Ralph DeBiasi; Tzu-Hsiu Chen; Karen A Glatt; Heidi Greulich; Brian Desany; Christine K Lubeski; William Brockman; Pablo Alvarez; Stephen K Hutchison; J H Leamon; Michael T Ronan; Gregory S Turenchalk; Michael Egholm; William R Sellers; Jonathan M Rothberg; Matthew Meyerson
Journal:  Nat Med       Date:  2006-06-25       Impact factor: 53.440

Review 2.  Computational methods for discovering structural variation with next-generation sequencing.

Authors:  Paul Medvedev; Monica Stanciu; Michael Brudno
Journal:  Nat Methods       Date:  2009-11       Impact factor: 28.547

3.  Massive parallel amplicon sequencing of the breast cancer genes BRCA1 and BRCA2: opportunities, challenges, and limitations.

Authors:  Kim De Leeneer; Jan Hellemans; Joachim De Schrijver; Machteld Baetens; Bruce Poppe; Wim Van Criekinge; Anne De Paepe; Paul Coucke; Kathleen Claes
Journal:  Hum Mutat       Date:  2011-02-08       Impact factor: 4.878

Review 4.  Next-generation sequencing platforms.

Authors:  Elaine R Mardis
Journal:  Annu Rev Anal Chem (Palo Alto Calif)       Date:  2013       Impact factor: 10.745

5.  Genetic evolution in the metastatic progression of human pancreatic cancer studied by CGH.

Authors:  G Armengol; G Capellà; L Farré; M A Peinado; R Miró; M R Caballín
Journal:  Lab Invest       Date:  2001-12       Impact factor: 5.662

Review 6.  Whole cancer genome sequencing by next-generation methods.

Authors:  Jeffrey S Ross; Maureen Cronin
Journal:  Am J Clin Pathol       Date:  2011-10       Impact factor: 2.493

7.  The patterns and dynamics of genomic instability in metastatic pancreatic cancer.

Authors:  Peter J Campbell; Shinichi Yachida; Laura J Mudie; Philip J Stephens; Erin D Pleasance; Lucy A Stebbings; Laura A Morsberger; Calli Latimer; Stuart McLaren; Meng-Lay Lin; David J McBride; Ignacio Varela; Serena A Nik-Zainal; Catherine Leroy; Mingming Jia; Andrew Menzies; Adam P Butler; Jon W Teague; Constance A Griffin; John Burton; Harold Swerdlow; Michael A Quail; Michael R Stratton; Christine Iacobuzio-Donahue; P Andrew Futreal
Journal:  Nature       Date:  2010-10-28       Impact factor: 49.962

8.  A comprehensive catalogue of somatic mutations from a human cancer genome.

Authors:  Erin D Pleasance; R Keira Cheetham; Philip J Stephens; David J McBride; Sean J Humphray; Chris D Greenman; Ignacio Varela; Meng-Lay Lin; Gonzalo R Ordóñez; Graham R Bignell; Kai Ye; Julie Alipaz; Markus J Bauer; David Beare; Adam Butler; Richard J Carter; Lina Chen; Anthony J Cox; Sarah Edkins; Paula I Kokko-Gonzales; Niall A Gormley; Russell J Grocock; Christian D Haudenschild; Matthew M Hims; Terena James; Mingming Jia; Zoya Kingsbury; Catherine Leroy; John Marshall; Andrew Menzies; Laura J Mudie; Zemin Ning; Tom Royce; Ole B Schulz-Trieglaff; Anastassia Spiridou; Lucy A Stebbings; Lukasz Szajkowski; Jon Teague; David Williamson; Lynda Chin; Mark T Ross; Peter J Campbell; David R Bentley; P Andrew Futreal; Michael R Stratton
Journal:  Nature       Date:  2009-12-16       Impact factor: 49.962

Review 9.  Cancer genomics identifies determinants of tumor biology.

Authors:  Elaine R Mardis
Journal:  Genome Biol       Date:  2010-05-05       Impact factor: 13.583

10.  The genomic complexity of primary human prostate cancer.

Authors:  Michael F Berger; Michael S Lawrence; Francesca Demichelis; Yotam Drier; Kristian Cibulskis; Andrey Y Sivachenko; Andrea Sboner; Raquel Esgueva; Dorothee Pflueger; Carrie Sougnez; Robert Onofrio; Scott L Carter; Kyung Park; Lukas Habegger; Lauren Ambrogio; Timothy Fennell; Melissa Parkin; Gordon Saksena; Douglas Voet; Alex H Ramos; Trevor J Pugh; Jane Wilkinson; Sheila Fisher; Wendy Winckler; Scott Mahan; Kristin Ardlie; Jennifer Baldwin; Jonathan W Simons; Naoki Kitabayashi; Theresa Y MacDonald; Philip W Kantoff; Lynda Chin; Stacey B Gabriel; Mark B Gerstein; Todd R Golub; Matthew Meyerson; Ashutosh Tewari; Eric S Lander; Gad Getz; Mark A Rubin; Levi A Garraway
Journal:  Nature       Date:  2011-02-10       Impact factor: 49.962

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  17 in total

Review 1.  First Responder to Genomic Information: A Guide for Primary Care Providers.

Authors:  Susanne B Haga
Journal:  Mol Diagn Ther       Date:  2019-08       Impact factor: 4.074

2.  Ethical, Legal, and Social Issues (ELSI) in Clinical Genetics Research.

Authors:  Daryl Pullman; Holly Etchegary
Journal:  Methods Mol Biol       Date:  2021

3.  Identification and Verification of Key Tumor Genes Associated with Diagnosis and Prognosis of Breast Cancer Based on Bioinformatics Analysis.

Authors:  Feng Yu; Xian-Jun Pan; Jie Luo
Journal:  Dis Markers       Date:  2022-05-31       Impact factor: 3.464

Review 4.  Cancer Risk and Mutational Patterns Following Organ Transplantation.

Authors:  Yangyang Shen; Di Lian; Kai Shi; Yuefeng Gao; Xiaoxiang Hu; Kun Yu; Qian Zhao; Chungang Feng
Journal:  Front Cell Dev Biol       Date:  2022-06-28

5.  Comparison of liquid-based to tissue-based biopsy analysis by targeted next generation sequencing in advanced non-small cell lung cancer: a comprehensive systematic review.

Authors:  Stepan M Esagian; Georgia Ι Grigoriadou; Ilias P Nikas; Vasileios Boikou; Peter M Sadow; Jae-Kyung Won; Konstantinos P Economopoulos
Journal:  J Cancer Res Clin Oncol       Date:  2020-05-27       Impact factor: 4.553

6.  Public interest in unexpected genomic findings: a survey study identifying aspects of sequencing attitudes that influence preferences.

Authors:  Holly Etchegary; Daryl Pullman; Charlene Simmonds; Proton Rahman
Journal:  J Community Genet       Date:  2022-01-21

7.  Aptamer Combined with Fluorescent Silica Nanoparticles for Detection of Hepatoma Cells.

Authors:  Zixi Hu; Juntao Tan; Zongqiang Lai; Rong Zheng; Jianhong Zhong; Yiwei Wang; Xiaoxue Li; Nuo Yang; Jieping Li; Wei Yang; Yong Huang; Yongxiang Zhao; Xiaoling Lu
Journal:  Nanoscale Res Lett       Date:  2017-02-07       Impact factor: 4.703

8.  A simple and robust real-time qPCR method for the detection of PIK3CA mutations.

Authors:  Virginia Alvarez-Garcia; Clare Bartos; Ieva Keraite; Urmi Trivedi; Paul M Brennan; Maïwenn Kersaudy-Kerhoas; Karim Gharbi; Olga Oikonomidou; Nicholas R Leslie
Journal:  Sci Rep       Date:  2018-03-09       Impact factor: 4.379

9.  Predispositional genome sequencing in healthy adults: design, participant characteristics, and early outcomes of the PeopleSeq Consortium.

Authors:  Emilie S Zoltick; Michael D Linderman; Molly A McGinniss; Erica Ramos; Madeleine P Ball; George M Church; Debra G B Leonard; Stacey Pereira; Amy L McGuire; C Thomas Caskey; Saskia C Sanderson; Eric E Schadt; Daiva E Nielsen; Scott D Crawford; Robert C Green
Journal:  Genome Med       Date:  2019-02-27       Impact factor: 11.117

10.  A Novel DPYD Variant Associated With Severe Toxicity of Fluoropyrimidines: Role of Pre-emptive DPYD Genotype Screening.

Authors:  Chi C Tong; Ching W Lam; Ka O Lam; Victor H F Lee; Mai-Yee Luk
Journal:  Front Oncol       Date:  2018-07-24       Impact factor: 6.244

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