Literature DB >> 19115029

Basic principles and technologies for deciphering the genetic map of cancer.

Georgios Voidonikolas1, Stephanie S Kreml, Changyi Chen, William E Fisher, F Charles Brunicardi, Richard A Gibbs, Marie-Claude Gingras.   

Abstract

The progress achieved in the field of genomics in recent years is leading medicine to adopt a personalized model in which the knowledge of individual DNA alterations will allow a targeted approach to cancer. Using pancreatic cancer as a model, we discuss herein the fundamentals that need to be considered for the high throughput and global identification of mutations. These include patient-related issues, sample collection, DNA isolation, gene selection, primer design, and sequencing techniques. We also describe the possible applications of the discovery of DNA changes to the approach of this disease and cite preliminary efforts where the knowledge has been translated into the clinical or preclinical setting.

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Year:  2009        PMID: 19115029      PMCID: PMC2924149          DOI: 10.1007/s00268-008-9851-y

Source DB:  PubMed          Journal:  World J Surg        ISSN: 0364-2313            Impact factor:   3.352


  132 in total

1.  Welcome to the genomic era.

Authors:  Alan E Guttmacher; Francis S Collins
Journal:  N Engl J Med       Date:  2003-09-04       Impact factor: 91.245

2.  Highly parallel SNP genotyping.

Authors:  J B Fan; A Oliphant; R Shen; B G Kermani; F Garcia; K L Gunderson; M Hansen; F Steemers; S L Butler; P Deloukas; L Galver; S Hunt; C McBride; M Bibikova; T Rubano; J Chen; E Wickham; D Doucet; W Chang; D Campbell; B Zhang; S Kruglyak; D Bentley; J Haas; P Rigault; L Zhou; J Stuelpnagel; M S Chee
Journal:  Cold Spring Harb Symp Quant Biol       Date:  2003

3.  Informing research participants of research results: analysis of Canadian university based research ethics board policies.

Authors:  S D Macneil; C V Fernandez
Journal:  J Med Ethics       Date:  2006-01       Impact factor: 2.903

4.  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

5.  Mutation detection and single-molecule counting using isothermal rolling-circle amplification.

Authors:  P M Lizardi; X Huang; Z Zhu; P Bray-Ward; D C Thomas; D C Ward
Journal:  Nat Genet       Date:  1998-07       Impact factor: 38.330

Review 6.  Pharmacogenetics of cancer chemotherapy.

Authors:  Jean Abraham; Helena M Earl; Paul D Pharoah; Carlos Caldas
Journal:  Biochim Biophys Acta       Date:  2006-10-25

7.  Adenovirus-mediated transfer of p53 and p16(INK4a) results in pancreatic cancer regression in vitro and in vivo.

Authors:  P Ghaneh; W Greenhalf; M Humphreys; D Wilson; L Zumstein; N R Lemoine; J P Neoptolemos
Journal:  Gene Ther       Date:  2001-02       Impact factor: 5.250

8.  Identification of K-ras mutations in pancreatic juice in the early diagnosis of pancreatic cancer.

Authors:  P Berthélemy; M Bouisson; J Escourrou; N Vaysse; J L Rumeau; L Pradayrol
Journal:  Ann Intern Med       Date:  1995-08-01       Impact factor: 25.391

9.  Detection of ras gene mutations in pancreatic juice and peripheral blood of patients with pancreatic adenocarcinoma.

Authors:  M Tada; M Omata; S Kawai; H Saisho; M Ohto; R K Saiki; J J Sninsky
Journal:  Cancer Res       Date:  1993-06-01       Impact factor: 12.701

10.  The mutant form of lamin A that causes Hutchinson-Gilford progeria is a biomarker of cellular aging in human skin.

Authors:  Dayle McClintock; Desiree Ratner; Meepa Lokuge; David M Owens; Leslie B Gordon; Francis S Collins; Karima Djabali
Journal:  PLoS One       Date:  2007-12-05       Impact factor: 3.240

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  10 in total

Review 1.  Defining the cancer master switch.

Authors:  Courtney J Balentine; David H Berger; Shi-He Liu; Changyi Chen; John Nemunaitis; F Charles Brunicardi
Journal:  World J Surg       Date:  2011-08       Impact factor: 3.352

2.  A primer on a hepatocellular carcinoma bioresource bank using the cancer genome atlas guidelines: practical issues and pitfalls.

Authors:  N Thao T Nguyen; Ron T Cotton; Theresa R Harring; Jacfranz J Guiteau; Marie-Claude Gingras; David A Wheeler; Christine A O'Mahony; Richard A Gibbs; F Charles Brunicardi; John A Goss
Journal:  World J Surg       Date:  2011-08       Impact factor: 3.352

3.  Building a comprehensive genomic program for hepatocellular carcinoma.

Authors:  Theresa R Harring; Jacfranz J Guiteau; N Thao T Nguyen; Ron T Cotton; Marie-Claude Gingras; David A Wheeler; Christine A O'Mahony; Richard A Gibbs; F Charles Brunicardi; John A Goss
Journal:  World J Surg       Date:  2011-08       Impact factor: 3.352

4.  Genomic sequencing of key genes in mouse pancreatic cancer cells.

Authors:  Y Wang; Y Zhang; J Yang; X Ni; S Liu; Z Li; S E Hodges; W E Fisher; F C Brunicardi; R A Gibbs; M-C Gingras; M Li
Journal:  Curr Mol Med       Date:  2012-03       Impact factor: 2.222

Review 5.  Overview of the development of personalized genomic medicine and surgery.

Authors:  F Charles Brunicardi; Richard A Gibbs; David A Wheeler; John Nemunaitis; William Fisher; John Goss; Changyi Chen
Journal:  World J Surg       Date:  2011-08       Impact factor: 3.352

6.  Distinguishing between cancer driver and passenger gene alteration candidates via cross-species comparison: a pilot study.

Authors:  Xinglai Ji; Jie Tang; Richard Halberg; Dana Busam; Steve Ferriera; Maria Marjorette O Peña; Chinnambally Venkataramu; Timothy J Yeatman; Shaying Zhao
Journal:  BMC Cancer       Date:  2010-08-13       Impact factor: 4.430

7.  Single nucleotide polymorphism in RECQL and survival in resectable pancreatic adenocarcinoma.

Authors:  Ronald T Cotton; Donghui Li; Steven E Scherer; Donna M Muzny; Sally E Hodges; Robbi L Catania; Agnieszka K Witkiewicz; Jonathan R Brody; Eugene P Kennedy; Charles J Yeo; F Charles Brunicardi; Richard A Gibbs; Marie-Claude Gingras; William E Fisher
Journal:  HPB (Oxford)       Date:  2009-08       Impact factor: 3.647

8.  Paired tumor and normal whole genome sequencing of metastatic olfactory neuroblastoma.

Authors:  Glen J Weiss; Winnie S Liang; Tyler Izatt; Shilpi Arora; Irene Cherni; Robert N Raju; Galen Hostetter; Ahmet Kurdoglu; Alexis Christoforides; Shripad Sinari; Angela S Baker; Raghu Metpally; Waibhav D Tembe; Lori Phillips; Daniel D Von Hoff; David W Craig; John D Carpten
Journal:  PLoS One       Date:  2012-05-23       Impact factor: 3.240

Review 9.  Strategies for modern biomarker and drug development in oncology.

Authors:  Alan D Smith; Desam Roda; Timothy A Yap
Journal:  J Hematol Oncol       Date:  2014-10-03       Impact factor: 17.388

10.  Genetic variation and its role in malignancy.

Authors:  Bente A Talseth-Palmer; Rodney J Scott
Journal:  Int J Biomed Sci       Date:  2011-09
  10 in total

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