Literature DB >> 22868876

Systematic, evidence-based discovery of biomarkers at the NCI.

John R Prensner1, Arul M Chinnaiyan, Sudhir Srivastava.   

Abstract

In the past decade, biomarker discovery has become ubiquitous in cancer research. However, despite this interest in biomarker research, few newly-characterized biomarkers have emerged as clinically-used entities. Here, we review the current state of biomarker research in cancer and identify challenges that stall many biomarker discovery efforts. We outline a model for systematic biomarker discovery, exemplified by recent efforts in prostate cancer, in which bioinformatics plays a central role in identifying promising new candidate biomarkers. Finally, we review the role of the National Cancer Institute's Early Detection Research Network (EDRN) in biomarker studies and the importance of EDRN-led efforts to establish a research standard for more effective biomarker discovery efforts.

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Year:  2012        PMID: 22868876      PMCID: PMC3679913          DOI: 10.1007/s10585-012-9507-z

Source DB:  PubMed          Journal:  Clin Exp Metastasis        ISSN: 0262-0898            Impact factor:   5.150


  47 in total

Review 1.  Protein biomarker discovery and validation: the long and uncertain path to clinical utility.

Authors:  Nader Rifai; Michael A Gillette; Steven A Carr
Journal:  Nat Biotechnol       Date:  2006-08       Impact factor: 54.908

2.  Use of the percentage of free prostate-specific antigen to enhance differentiation of prostate cancer from benign prostatic disease: a prospective multicenter clinical trial.

Authors:  W J Catalona; A W Partin; K M Slawin; M K Brawer; R C Flanigan; A Patel; J P Richie; J B deKernion; P C Walsh; P T Scardino; P H Lange; E N Subong; R E Parson; G H Gasior; K G Loveland; P C Southwick
Journal:  JAMA       Date:  1998-05-20       Impact factor: 56.272

3.  REporting recommendations for tumor MARKer prognostic studies (REMARK).

Authors:  Lisa M McShane; Douglas G Altman; Willi Sauerbrei; Sheila E Taube; Massimo Gion; Gary M Clark
Journal:  Nat Clin Pract Oncol       Date:  2005-08

Review 4.  Oncogenic gene fusions in epithelial carcinomas.

Authors:  John R Prensner; Arul M Chinnaiyan
Journal:  Curr Opin Genet Dev       Date:  2009-02-21       Impact factor: 5.578

5.  Metabolomic profiles delineate potential role for sarcosine in prostate cancer progression.

Authors:  Arun Sreekumar; Laila M Poisson; Thekkelnaycke M Rajendiran; Amjad P Khan; Qi Cao; Jindan Yu; Bharathi Laxman; Rohit Mehra; Robert J Lonigro; Yong Li; Mukesh K Nyati; Aarif Ahsan; Shanker Kalyana-Sundaram; Bo Han; Xuhong Cao; Jaeman Byun; Gilbert S Omenn; Debashis Ghosh; Subramaniam Pennathur; Danny C Alexander; Alvin Berger; Jeffrey R Shuster; John T Wei; Sooryanarayana Varambally; Christopher Beecher; Arul M Chinnaiyan
Journal:  Nature       Date:  2009-02-12       Impact factor: 49.962

Review 6.  The use of PCA3 in the diagnosis of prostate cancer.

Authors:  Daphne Hessels; Jack A Schalken
Journal:  Nat Rev Urol       Date:  2009-05       Impact factor: 14.432

7.  Evaluation of percentage of free serum prostate-specific antigen to improve specificity of prostate cancer screening.

Authors:  W J Catalona; D S Smith; R L Wolfert; T J Wang; H G Rittenhouse; T L Ratliff; R B Nadler
Journal:  JAMA       Date:  1995-10-18       Impact factor: 56.272

8.  TMPRSS2-ERG gene fusion is not associated with outcome in patients treated by prostatectomy.

Authors:  Anuradha Gopalan; Margaret A Leversha; Jaya M Satagopan; Qin Zhou; Hikmat A Al-Ahmadie; Samson W Fine; James A Eastham; Peter T Scardino; Howard I Scher; Satish K Tickoo; Victor E Reuter; William L Gerald
Journal:  Cancer Res       Date:  2009-02-03       Impact factor: 12.701

9.  Prevalence of prostate cancer among men with a prostate-specific antigen level < or =4.0 ng per milliliter.

Authors:  Ian M Thompson; Donna K Pauler; Phyllis J Goodman; Catherine M Tangen; M Scott Lucia; Howard L Parnes; Lori M Minasian; Leslie G Ford; Scott M Lippman; E David Crawford; John J Crowley; Charles A Coltman
Journal:  N Engl J Med       Date:  2004-05-27       Impact factor: 91.245

10.  Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression.

Authors:  John R Prensner; Matthew K Iyer; O Alejandro Balbin; Saravana M Dhanasekaran; Qi Cao; J Chad Brenner; Bharathi Laxman; Irfan A Asangani; Catherine S Grasso; Hal D Kominsky; Xuhong Cao; Xiaojun Jing; Xiaoju Wang; Javed Siddiqui; John T Wei; Daniel Robinson; Hari K Iyer; Nallasivam Palanisamy; Christopher A Maher; Arul M Chinnaiyan
Journal:  Nat Biotechnol       Date:  2011-07-31       Impact factor: 54.908

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  12 in total

1.  A Festschrift in Honor of Edward M. Messing, MD, FACS.

Authors:  Jean V Joseph; Ralph Brasacchio; Chunkit Fung; Jay Reeder; Kevin Bylund; Deepak Sahasrabudhe; Shu Yuan Yeh; Ahmed Ghazi; Patrick Fultz; Deborah Rubens; Guan Wu; Eric Singer; Edward Schwarz; Supriya Mohile; James Mohler; Dan Theodorescu; Yi Fen Lee; Paul Okunieff; David McConkey; Hani Rashid; Chawnshang Chang; Yves Fradet; Khurshid Guru; Janet Kukreja; Gerald Sufrin; Yair Lotan; Howard Bailey; Katia Noyes; Seymour Schwartz; Kathy Rideout; Gennady Bratslavsky; Steven C Campbell; Ithaar Derweesh; Per-Anders Abrahamsson; Mark Soloway; Leonard Gomella; Dragan Golijanin; Robert Svatek; Thomas Frye; Seth Lerner; Ganesh Palapattu; George Wilding; Michael Droller; Donald Trump
Journal:  Bladder Cancer       Date:  2018-10-03

2.  Molecular alterations in prostate cancer and association with MRI features.

Authors:  D Lee; J Fontugne; N Gumpeni; K Park; T Y MacDonald; B D Robinson; A Sboner; M A Rubin; J M Mosquera; C E Barbieri
Journal:  Prostate Cancer Prostatic Dis       Date:  2017-08-01       Impact factor: 5.554

3.  Improving the Specificity of Screening for Lethal Prostate Cancer Using Prostate-specific Antigen and a Panel of Kallikrein Markers: A Nested Case-Control Study.

Authors:  Pär Stattin; Andrew J Vickers; Daniel D Sjoberg; Robert Johansson; Torvald Granfors; Mattias Johansson; Kim Pettersson; Peter T Scardino; Göran Hallmans; Hans Lilja
Journal:  Eur Urol       Date:  2015-02-11       Impact factor: 20.096

4.  Quantitative validation of anti-PTBP1 antibody for diagnostic neuropathology use: Image analysis approach.

Authors:  Evgin Goceri; Behiye Goksel; James B Elder; Vinay K Puduvalli; Jose J Otero; Metin N Gurcan
Journal:  Int J Numer Method Biomed Eng       Date:  2017-02-10       Impact factor: 2.747

Review 5.  Recent Advances in Plasma-Engineered Polymers for Biomarker-Based Viral Detection and Highly Multiplexed Analysis.

Authors:  Seyyed Mojtaba Mousavi; Seyyed Alireza Hashemi; Masoomeh Yari Kalashgrani; Ahmad Gholami; Navid Omidifar; Aziz Babapoor; Neralla Vijayakameswara Rao; Wei-Hung Chiang
Journal:  Biosensors (Basel)       Date:  2022-04-28

6.  A multicenter study shows PTEN deletion is strongly associated with seminal vesicle involvement and extracapsular extension in localized prostate cancer.

Authors:  Dean A Troyer; Tamara Jamaspishvili; Wei Wei; Ziding Feng; Jennifer Good; Sarah Hawley; Ladan Fazli; Jesse K McKenney; Jeff Simko; Antonio Hurtado-Coll; Peter R Carroll; Martin Gleave; Raymond Lance; Daniel W Lin; Peter S Nelson; Ian M Thompson; Lawrence D True; James D Brooks; Jeremy A Squire
Journal:  Prostate       Date:  2015-05-04       Impact factor: 4.104

Review 7.  Glioblastoma extracellular vesicles: reservoirs of potential biomarkers.

Authors:  Jasmina S Redzic; Timothy H Ung; Michael W Graner
Journal:  Pharmgenomics Pers Med       Date:  2014-02-13

Review 8.  A knowledge-driven approach to extract disease-related biomarkers from the literature.

Authors:  À Bravo; M Cases; N Queralt-Rosinach; F Sanz; L I Furlong
Journal:  Biomed Res Int       Date:  2014-04-16       Impact factor: 3.411

9.  Lactate dehydrogenase 5 expression in Non-Hodgkin lymphoma is associated with the induced hypoxia regulated protein and poor prognosis.

Authors:  Renquan Lu; Minglei Jiang; Zhujun Chen; Xiaofeng Xu; Hongfeng Hu; Xinmin Zhao; Xiang Gao; Lin Guo
Journal:  PLoS One       Date:  2013-09-23       Impact factor: 3.240

Review 10.  Beyond the Ribosome: Extra-translational Functions of tRNA Fragments.

Authors:  Kevin W Diebel; Kun Zhou; Aaron B Clarke; Lynne T Bemis
Journal:  Biomark Insights       Date:  2016-01-28
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