Publications by authors named "Venkatraman E Seshan"

83Publications

Testing tumors from different anatomic sites for clonal relatedness using somatic mutation data.

Biometrics 2020 Mar 5. Epub 2020 Mar 5.

Department of Epidemiology and Biostatistics, Memorial Sloan Kettering Cancer Center, New York, New York.

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http://dx.doi.org/10.1111/biom.13256DOI Listing
March 2020

An EM algorithm to improve the estimation of the probability of clonal relatedness of pairs of tumors in cancer patients.

BMC Bioinformatics 2019 Nov 8;20(1):555. Epub 2019 Nov 8.

Department of Epidemiology and Biostatistics, Memorial Sloan Kettering Cancer Center, 485 Lexington Ave, 2nd floor, New York, NY, 10017, USA.

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http://dx.doi.org/10.1186/s12859-019-3148-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6839069PMC
November 2019

Testing clonal relatedness of two tumors from the same patient based on their mutational profiles: update of the Clonality R package.

Bioinformatics 2019 11;35(22):4776-4778

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, NY 10017, USA.

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http://dx.doi.org/10.1093/bioinformatics/btz486DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6853680PMC
November 2019

Identification of prognostic molecular biomarkers in 157 HPV-positive and HPV-negative squamous cell carcinomas of the oropharynx.

Int J Cancer 2019 12 30;145(11):3152-3162. Epub 2019 May 30.

Department of Surgery, Memorial Sloan Kettering Cancer Center, New York, NY.

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http://dx.doi.org/10.1002/ijc.32412DOI Listing
December 2019

RE: "A MULTINOMIAL REGRESSION APPROACH TO MODEL OUTCOME HETEROGENEITY".

Am J Epidemiol 2018 05;187(5):1129-1130

Department of Epidemiology and Biostatistics, Memorial Sloan Kettering Cancer Center, New York, NY.

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http://dx.doi.org/10.1093/aje/kwy032DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454493PMC
May 2018

Defining Cancer Subtypes With Distinctive Etiologic Profiles: An Application to the Epidemiology of Melanoma.

J Am Stat Assoc 2017 3;112(517):54-63. Epub 2017 May 3.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, NY.

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http://dx.doi.org/10.1080/01621459.2016.1191499DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5460661PMC
May 2017

Estimating the probability of clonal relatedness of pairs of tumors in cancer patients.

Biometrics 2018 03 8;74(1):321-330. Epub 2017 May 8.

Department of Epidemiology & Biostatistics, Memorial Sloan Kettering Cancer Center, 485 Lexington Avenue, 2nd Floor, New York, New York 10017, U.S.A.

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http://dx.doi.org/10.1111/biom.12710DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5677588PMC
March 2018

Asynchronous fate decisions by single cells collectively ensure consistent lineage composition in the mouse blastocyst.

Nat Commun 2016 11 18;7:13463. Epub 2016 Nov 18.

Developmental Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, 1275 York Avenue, New York, New York 10065, USA.

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http://dx.doi.org/10.1038/ncomms13463DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5120222PMC
November 2016

FACETS: allele-specific copy number and clonal heterogeneity analysis tool for high-throughput DNA sequencing.

Nucleic Acids Res 2016 09 7;44(16):e131. Epub 2016 Jun 7.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA

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http://dx.doi.org/10.1093/nar/gkw520DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5027494PMC
September 2016

TNF is a key cytokine mediating neutrophil cytotoxic activity in breast cancer patients.

NPJ Breast Cancer 2016 20;2:16009. Epub 2016 Apr 20.

Department of Cancer Biology and Genetics, Memorial Sloan Kettering Cancer Center, New York, NY, USA.

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http://dx.doi.org/10.1038/npjbcancer.2016.9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5515342PMC
April 2016

Mitochondrial DNA copy number variation across human cancers.

Elife 2016 Feb 22;5. Epub 2016 Feb 22.

Computational Biology Program, Memorial Sloan Kettering Cancer Center, New York, United States.

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http://dx.doi.org/10.7554/eLife.10769DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4775221PMC
February 2016

USING SOMATIC MUTATION DATA TO TEST TUMORS FOR CLONAL RELATEDNESS.

Ann Appl Stat 2015 Sep 2;9(3):1533-1548. Epub 2015 Nov 2.

Memorial Sloan Kettering Cancer Center.

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http://dx.doi.org/10.1214/15-AOAS836DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4649945PMC
September 2015

Identifying Etiologically Distinct Sub-Types of Cancer: A Demonstration Project Involving Breast Cancer.

Cancer Med 2015 Sep 13;4(9):1432-9. Epub 2015 May 13.

Department of Epidemiology and Biostatistics, Memorial Sloan Kettering Cancer Center, New York City, New York.

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http://dx.doi.org/10.1002/cam4.456DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4567028PMC
September 2015

False discovery rates for rare variants from sequenced data.

Genet Epidemiol 2015 Feb 30;39(2):65-76. Epub 2014 Dec 30.

Department of Epidemiology and Biostatistics, Memorial Sloan Kettering Cancer Center, New York, United States of America.

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http://dx.doi.org/10.1002/gepi.21880DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4711769PMC
February 2015

Frequent disruption of the RB pathway in indolent follicular lymphoma suggests a new combination therapy.

J Exp Med 2014 Jun 9;211(7):1379-91. Epub 2014 Jun 9.

Cancer Biology & Genetics Program, Computational Biology Program, Department of Medicine, Human Oncology and Pathogenesis Program, Genomics Core Facility, Molecular Pharmacology Program, Department of Pathology, Department of Epidemiology and Biostatistics, and Cell Biology Program, Memorial Sloan-Kettering Cancer Center, New York, NY 10065

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http://dx.doi.org/10.1084/jem.20132120DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4076578PMC
June 2014

Testing the incremental predictive accuracy of new markers.

Clin Trials 2013 Oct 23;10(5):690-2. Epub 2013 Jul 23.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, USA.

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http://dx.doi.org/10.1177/1740774513496490DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3800241PMC
October 2013

A conceptual and methodological framework for investigating etiologic heterogeneity.

Stat Med 2013 Dec 16;32(29):5039-52. Epub 2013 Jul 16.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, New York 10065, U.S.A.

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http://dx.doi.org/10.1002/sim.5902DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4104361PMC
December 2013

Pattern discovery and cancer gene identification in integrated cancer genomic data.

Proc Natl Acad Sci U S A 2013 Mar 21;110(11):4245-50. Epub 2013 Feb 21.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA.

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http://www.pnas.org/content/110/11/4245.full.pdf
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http://www.pnas.org/cgi/doi/10.1073/pnas.1208949110
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http://dx.doi.org/10.1073/pnas.1208949110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3600490PMC
March 2013

Comparing ROC curves derived from regression models.

Stat Med 2013 Apr 3;32(9):1483-93. Epub 2012 Oct 3.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA.

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http://dx.doi.org/10.1002/sim.5648DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3617074PMC
April 2013

Detectable clonal mosaicism from birth to old age and its relationship to cancer.

Nat Genet 2012 May 6;44(6):642-50. Epub 2012 May 6.

Department of Biostatistics, University of Washington, Seattle, Washington, USA.

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http://www.nature.com/articles/ng.2271
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http://dx.doi.org/10.1038/ng.2271DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3366033PMC
May 2012

Integrative subtype discovery in glioblastoma using iCluster.

PLoS One 2012 23;7(4):e35236. Epub 2012 Apr 23.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0035236PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3335101PMC
September 2012

TALK score: Development and validation of a prognostic model for predicting larynx preservation outcome.

Laryngoscope 2012 May 28;122(5):1043-50. Epub 2012 Feb 28.

Division of Solid Tumor Oncology, Department of Medicine, Memorial Sloan-Kettering Cancer Center, New York, New York, USA.

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http://doi.wiley.com/10.1002/lary.23220
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http://dx.doi.org/10.1002/lary.23220DOI Listing
May 2012

Multi-SNP haplotype analysis methods for association analysis.

Methods Mol Biol 2012 ;850:423-52

Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.

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http://dx.doi.org/10.1007/978-1-61779-555-8_23DOI Listing
May 2012

Parent-specific copy number in paired tumor-normal studies using circular binary segmentation.

Bioinformatics 2011 Aug 11;27(15):2038-46. Epub 2011 Jun 11.

Department of Epidemiology and Biostatistics, University of California, San Francisco, CA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btr329DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3137217PMC
August 2011

Clonality: an R package for testing clonal relatedness of two tumors from the same patient based on their genomic profiles.

Bioinformatics 2011 Jun 5;27(12):1698-9. Epub 2011 May 5.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btr267DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3106202PMC
June 2011

Pralatrexate is synergistic with the proteasome inhibitor bortezomib in in vitro and in vivo models of T-cell lymphoid malignancies.

Clin Cancer Res 2010 Jul 25;16(14):3648-58. Epub 2010 May 25.

New York University Cancer Institute, NYU Langone Medical Center, New York, New York 10016, USA.

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http://clincancerres.aacrjournals.org/cgi/doi/10.1158/1078-0
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http://dx.doi.org/10.1158/1078-0432.CCR-10-0671DOI Listing
July 2010

Predictors of outcomes after surgical treatment of synchronous primary lung cancers.

J Thorac Oncol 2010 Feb;5(2):197-205

Department of Surgery, Thoracic Service, Memorial Sloan-Kettering Cancer Center, New York City, New York 10021, USA.

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http://dx.doi.org/10.1097/JTO.0b013e3181c814c5DOI Listing
February 2010

Romidepsin and belinostat synergize the antineoplastic effect of bortezomib in mantle cell lymphoma.

Clin Cancer Res 2010 Jan 12;16(2):554-65. Epub 2010 Jan 12.

Herbert Irving Comprehensive Cancer Center, Columbia University, New York, New York, USA.

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http://clincancerres.aacrjournals.org/cgi/doi/10.1158/1078-0
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http://dx.doi.org/10.1158/1078-0432.CCR-09-1937DOI Listing
January 2010

Antibiotic use in the management of pulmonary nodules.

Chest 2010 Feb 25;137(2):369-75. Epub 2009 Sep 25.

Department of Medicine, Memorial Sloan-Kettering Cancer Center, New York, NY 10021, USA.

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https://linkinghub.elsevier.com/retrieve/pii/S00123692106008
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http://dx.doi.org/10.1378/chest.09-0562DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3734885PMC
February 2010

Postradiotherapy 2-year prostate-specific antigen nadir as a predictor of long-term prostate cancer mortality.

Int J Radiat Oncol Biol Phys 2009 Dec 8;75(5):1350-6. Epub 2009 Jun 8.

Department of Radiation Oncology, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA.

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http://dx.doi.org/10.1016/j.ijrobp.2008.12.067DOI Listing
December 2009

Development and validation of a high-density fluorescence polarization-based assay for the trypanosoma RNA triphosphatase TbCet1.

Comb Chem High Throughput Screen 2009 Mar;12(3):258-68

High Throughput Screening Core Facility, Molecular Pharmacology and Chemistry Program, Memorial Sloan-Kettering Cancer Center, 1275 York Avenue, New York, NY 10065, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3626118PMC
http://dx.doi.org/10.2174/138620709787581729DOI Listing
March 2009

Dynamic NMR effects in breast cancer dynamic-contrast-enhanced MRI.

Proc Natl Acad Sci U S A 2008 Nov 13;105(46):17937-42. Epub 2008 Nov 13.

W. M. Keck Foundation High-Field MRI Laboratory-Advanced Imaging Research Center, Oregon Health and Science University, Portland, OR 97239, USA.

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http://dx.doi.org/10.1073/pnas.0804224105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2582941PMC
November 2008

Improved survival for fallopian tube cancer: a comparison of clinical characteristics and outcome for primary fallopian tube and ovarian cancer.

Cancer 2008 Dec;113(12):3298-306

Division of Gynecologic Oncology, Department of Obstetrics and Gynecology, Columbia University College of Physicians and Surgeons, New York, NY 10032, USA.

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http://dx.doi.org/10.1002/cncr.23957DOI Listing
December 2008

The magnetic resonance shutter speed discriminates vascular properties of malignant and benign breast tumors in vivo.

Proc Natl Acad Sci U S A 2008 Nov 12;105(46):17943-8. Epub 2008 Nov 12.

Department of Medical Physics, Memorial Sloan-Kettering Cancer Center, New York, NY 10021, USA.

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http://dx.doi.org/10.1073/pnas.0711226105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2582583PMC
November 2008

The impact of lymph node station on survival in 348 patients with surgically resected malignant pleural mesothelioma: implications for revision of the American Joint Committee on Cancer staging system.

J Thorac Cardiovasc Surg 2008 Sep 27;136(3):605-10. Epub 2008 Jun 27.

Thoracic Service, Department of Surgery, Memorial Sloan-Kettering Cancer Center, New York, New York 10021, USA.

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http://dx.doi.org/10.1016/j.jtcvs.2008.02.069DOI Listing
September 2008

A high density assay format for the detection of novel cytotoxic agents in large chemical libraries.

J Enzyme Inhib Med Chem 2008 Dec;23(6):931-45

High Throughput Screening Core Facility, Memorial Sloan-Kettering Cancer Center, 1275 York Avenue, New York, NY 10021, USA.

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https://www.tandfonline.com/doi/full/10.1080/147563607018100
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http://dx.doi.org/10.1080/14756360701810082DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3710589PMC
December 2008

Uterine carcinosarcomas and grade 3 endometrioid cancers: evidence for distinct tumor behavior.

Obstet Gynecol 2008 Jul;112(1):64-70

Division of Gynecologic Oncology, Department of Obstetrics and Gynecology, Columbia University College of Physicians and Surgeons, New York, NY 10032, USA.

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http://dx.doi.org/10.1097/AOG.0b013e318176157cDOI Listing
July 2008

Comparison of kilovoltage cone-beam computed tomography with megavoltage projection pairs for paraspinal radiosurgery patient alignment and position verification.

Int J Radiat Oncol Biol Phys 2008 Aug 6;71(5):1572-80. Epub 2008 Jun 6.

Department of Medical Physics, Memorial Sloan-Kettering Cancer Center, 1275 York Avenue, New York, NY 10021, USA.

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http://dx.doi.org/10.1016/j.ijrobp.2008.04.029DOI Listing
August 2008

The role of radiation in improving survival for early-stage carcinosarcoma and leiomyosarcoma.

Am J Obstet Gynecol 2008 Nov 3;199(5):536.e1-8. Epub 2008 Jun 3.

Division of Gynecologic Oncology, Department of Obstetrics and Gynecology, Columbia University College of Physicians and Surgeons, New York, NY 10032, USA.

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https://linkinghub.elsevier.com/retrieve/pii/S00029378080041
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http://dx.doi.org/10.1016/j.ajog.2008.04.019DOI Listing
November 2008

Extrapleural pneumonectomy versus pleurectomy/decortication in the surgical management of malignant pleural mesothelioma: results in 663 patients.

J Thorac Cardiovasc Surg 2008 Mar 14;135(3):620-6, 626.e1-3. Epub 2008 Feb 14.

Thoracic Service, Department of Surgery, Memorial Sloan-Kettering Cancer Center, New York, NY 10021, USA.

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http://linkinghub.elsevier.com/retrieve/pii/S002252230701899
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http://dx.doi.org/10.1016/j.jtcvs.2007.10.054DOI Listing
March 2008

Comparison of properties of tests for assessing tumor clonality.

Biometrics 2008 Dec 11;64(4):1018-22. Epub 2008 Feb 11.

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, New York, New York 10021, USA.

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http://dx.doi.org/10.1111/j.1541-0420.2008.00988.xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2761024PMC
December 2008

Estimating the empirical Lorenz curve and Gini coefficient in the presence of error with nested data.

Stat Med 2008 Jul;27(16):3191-208

Department of Epidemiology and Biostatistics, Memorial Sloan-Kettering Cancer Center, 307 East 63rd Street, 3rd Floor, New York, NY 10021, USA.

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http://dx.doi.org/10.1002/sim.3151DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3465674PMC
July 2008

Comparison of Helzel and OxyLite systems in the measurements of tumor partial oxygen pressure (pO2).

Radiat Res 2008 Jan;169(1):67-75

Department of Medical Physics, Memorial Sloan-Kettering Cancer Center, New York, New York 10021, USA.

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http://www.bioone.org/doi/10.1667/RR0888.1
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http://dx.doi.org/10.1667/RR0888.1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2723949PMC
January 2008

Use of video-assisted thoracic surgery for lobectomy in the elderly results in fewer complications.

Ann Thorac Surg 2008 Jan;85(1):231-5; discussion 235-6

Department of Surgery, Memorial Sloan-Kettering Cancer Center, New York, New York 10021, USA.

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http://dx.doi.org/10.1016/j.athoracsur.2007.07.080DOI Listing
January 2008

Prognostic factors after combined modality treatment of squamous cell carcinoma of the esophagus.

J Thorac Oncol 2007 Dec;2(12):1117-23

Department of Surgery, Memorial Sloan Kettering Cancer Center, 1275 York Avenue, Room C-883, New York, NY 10021, USA.

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https://linkinghub.elsevier.com/retrieve/pii/S15560864153118
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http://dx.doi.org/10.1097/JTO.0b013e31815bfe53DOI Listing
December 2007

Feasibility of multimodality therapy including extended resections in stage IVA thymoma.

J Thorac Cardiovasc Surg 2007 Dec 26;134(6):1477-83; discussion 1483-4. Epub 2007 Oct 26.

Thoracic Service, Department of Surgery, Memorial Sloan-Kettering Cancer Center, New York, NY, USA.

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http://dx.doi.org/10.1016/j.jtcvs.2007.07.049DOI Listing
December 2007

Incidence and risk factors for lung injury after lung cancer resection.

Ann Thorac Surg 2007 Oct;84(4):1085-91; discussion 1091

Department of Surgery, Memorial Sloan-Kettering Cancer Center, New York, New York 10021, USA.

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http://dx.doi.org/10.1016/j.athoracsur.2007.05.053DOI Listing
October 2007

High-throughput identification of inhibitors of human mitochondrial peptide deformylase.

J Biomol Screen 2007 Jun 13;12(4):521-35. Epub 2007 Apr 13.

High Throughput Screening Core Facility, Memorial Sloan-Kettering Cancer Center, New York, New York 10021, USA.

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http://dx.doi.org/10.1177/1087057107300463DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2234356PMC
June 2007