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A dosimetric comparison of proton and photon therapy in unresectable cancers of the head of pancreas.
Published in:
Medical Physics, 2014, v. 41, n. 8, p. 1, doi. 10.1118/1.4887797
By:
- Thompson, Reid F.;
- Mayekar, Sonal U.;
- Zhai, Huifang;
- Both, Stefan;
- Apisarnthanarax, Smith;
- Metz, James M.;
- Plastaras, John P.;
- Ben‐Josef, Edgar
Publication type:
Article
Population-level distribution and putative immunogenicity of cancer neoepitopes.
Published in:
2018
By:
- Wood, Mary A.;
- Paralkar, Mayur;
- Paralkar, Mihir P.;
- Nguyen, Austin;
- Struck, Adam J.;
- Ellrott, Kyle;
- Margolin, Adam;
- Nellore, Abhinav;
- Thompson, Reid F.
Publication type:
journal article
Validity of Veterans Health Administration structured data to determine accurate smoking status.
Published in:
Health Informatics Journal, 2020, v. 26, n. 3, p. 1507, doi. 10.1177/1460458219882259
By:
- Golden, Sara E;
- Hooker, Elizabeth R;
- Shull, Sarah;
- Howard, Matthew;
- Crothers, Kristina;
- Thompson, Reid F;
- Slatore, Christopher G
Publication type:
Article
High-resolution genome-wide cytosine methylation profiling with simultaneous copy number analysis and optimization for limited cell numbers.
Published in:
Nucleic Acids Research, 2009, v. 37, n. 12, p. 3829, doi. 10.1093/nar/gkp260
By:
- Oda, Mayumi;
- Glass, Jacob L.;
- Thompson, Reid F.;
- Mo, Yongkai;
- Olivier, Emmanuel N.;
- Figueroa, Maria E.;
- Selzer, Rebecca R.;
- Richmond, Todd A.;
- Zhang, Xinmin;
- Dannenberg, Luke;
- Green, Roland D.;
- Melnick, Ari;
- Hatchwell, Eli;
- Bouhassira, Eric E.;
- Verma, Amit;
- Suzuki, Masako;
- Greally, John M.
Publication type:
Article
CG dinucleotide clustering is a species-specific property of the genome.
Published in:
Nucleic Acids Research, 2007, v. 35, n. 20, p. 6798, doi. 10.1093/nar/gkm489
By:
- Glass, Jacob L.;
- Thompson, Reid F.;
- Khulan, Batbayar;
- Figueroa, Maria E.;
- Olivier, Emmanuel N.;
- Oakley, Erin J.;
- Van Zant, Gary;
- Bouhassira, Eric E.;
- Melnick, Ari;
- Golden, Aaron;
- Fazzari, Melissa J.;
- Greally, John M.
Publication type:
Article
Thromboembolic risk in patients with lung cancer receiving systemic therapy.
Published in:
British Journal of Haematology, 2021, v. 194, n. 1, p. 179, doi. 10.1111/bjh.17476
By:
- Madison, Cecelia J.;
- Melson, Ryan A.;
- Conlin, Michael J.;
- Gundle, Kenneth R.;
- Thompson, Reid F.;
- Calverley, David C.
Publication type:
Article
pepsickle rapidly and accurately predicts proteasomal cleavage sites for improved neoantigen identification.
Published in:
Bioinformatics, 2021, v. 37, n. 21, p. 3723, doi. 10.1093/bioinformatics/btab628
By:
- Weeder, Benjamin R;
- Wood, Mary A;
- Li, Ellysia;
- Nellore, Abhinav;
- Thompson, Reid F
Publication type:
Article
Cytosine Methylation Dysregulation in Neonates Following Intrauterine Growth Restriction.
Published in:
PLoS ONE, 2010, v. 5, n. 1, p. 1, doi. 10.1371/journal.pone.0008887
By:
- Einstein, Francine;
- Thompson, Reid F.;
- Bhagat, Tushar D.;
- Fazzari, Melissa J.;
- Verma, Amit;
- Barzilai, Nir;
- Greally, John M.
Publication type:
Article
An Integrative Genomic and Epigenomic Approach for the Study of Transcriptional Regulation.
Published in:
PLoS ONE, 2008, v. 3, n. 3, p. 1, doi. 10.1371/journal.pone.0001882
By:
- Figueroa, Maria E.;
- Reimers, Mark;
- Thompson, Reid F.;
- Ye, Kenny;
- Yushan Li;
- Selzer, Rebecca R.;
- Fridriksson, Jakob;
- Paietta, Elisabeth;
- Wiernik, Peter;
- Green, Roland D.;
- Greally, John M.;
- Melnick, Ari
Publication type:
Article
Survival Among Veterans Receiving Steroids for Immune-Related Adverse Events After Immune Checkpoint Inhibitor Therapy.
Published in:
JAMA Network Open, 2023, v. 6, n. 10, p. e2340695, doi. 10.1001/jamanetworkopen.2023.40695
By:
- Van Buren, Inga;
- Madison, Cecelia;
- Kohn, Aimee;
- Berry, Elizabeth;
- Kulkarni, Rajan P.;
- Thompson, Reid F.
Publication type:
Article
Enhanced activation of a "nutrient-sensing" pathway with age contributes to insulin resistance.
Published in:
FASEB Journal, 2008, v. 22, n. 10, p. 3450, doi. 10.1096/fj.08-109041
By:
- Einstein, Francine H.;
- Fishman, Sigal;
- Bauman, Jeffery;
- Thompson, Reid F.;
- Huffman, Derek M.;
- Atzmon, Gil;
- Barzilai, Nir;
- Muzumdar, Radhika H.
Publication type:
Article
Retained introns in long RNA-seq reads are not reliably detected in sample-matched short reads.
Published in:
Genome Biology, 2022, v. 23, n. 1, p. 1, doi. 10.1186/s13059-022-02789-6
By:
- David, Julianne K.;
- Maden, Sean K.;
- Wood, Mary A.;
- Thompson, Reid F.;
- Nellore, Abhinav
Publication type:
Article
Epigenetic Basis for Fetal Origins of Age-Related Disease.
Published in:
Journal of Women's Health (15409996), 2010, v. 19, n. 3, p. 581, doi. 10.1089/jwh.2009.1408
By:
- Thompson, Reid F.;
- Einstein, Francine H.
Publication type:
Article
Adrenal-Permissive Germline HSD3B1 Allele and Prostate Cancer Outcomes.
Published in:
JAMA Network Open, 2024, v. 7, n. 3, p. e242976, doi. 10.1001/jamanetworkopen.2024.2976
By:
- McKay, Rana R.;
- Nelson, Tyler J.;
- Pagadala, Meghana S.;
- Teerlink, Craig C.;
- Gao, Anthony;
- Bryant, Alex K.;
- Agiri, Fatai Y.;
- Guram, Kripa;
- Thompson, Reid F.;
- Pridgen, Kathryn M.;
- Seibert, Tyler M.;
- Lee, Kyung Min;
- Carter, Hannah;
- Lynch, Julie A.;
- Hauger, Richard L.;
- Rose, Brent S.
Publication type:
Article
Urine DNA for monitoring chemoradiotherapy response in muscle‐invasive bladder cancer: a pilot study.
Published in:
BJU International, 2022, v. 129, n. 1, p. 32, doi. 10.1111/bju.15589
By:
- Gordon, Naheema S.;
- Baxter, Laura A.;
- Goel, Anshita;
- Arnold, Roland;
- Kaur, Baljit;
- Liu, Wenyu;
- Pirrie, Sarah J.;
- Hussain, Syed;
- Viney, Richard;
- Ford, Daniel;
- Zarkar, Anjali;
- Wood, Mary A.;
- Mitin, Timur;
- Thompson, Reid F.;
- James, Nicholas D.;
- Ward, Douglas G.;
- Bryan, Richard T.
Publication type:
Article
Experimental Intrauterine Growth Retardation (IUGR) Induces Global Epigenetic Changes in Rats.
Published in:
Diabetes, 2007, v. 56, p. A102
By:
- Thompson, Reid F.;
- Simmons, Rebecca A.;
- Greally, John M.;
- Barzilai, Nir
Publication type:
Article
An analytical pipeline for genomic representations used for cytosine methylation studies.
Published in:
Bioinformatics, 2008, v. 24, n. 9, p. 1161, doi. 10.1093/bioinformatics/btn096
By:
- Reid F. Thompson;
- Mark Reimers;
- Batbayar Khulan;
- Mathieu Gissot;
- Todd A. Richmond;
- Quan Chen;
- Xin Zheng;
- Kami Kim;
- John M. Greally
Publication type:
Article
Plasma cell-free RNA profiling distinguishes cancers from pre-malignant conditions in solid and hematologic malignancies.
Published in:
NPJ Precision Oncology, 2022, v. 6, n. 1, p. 1, doi. 10.1038/s41698-022-00270-y
By:
- Roskams-Hieter, Breeshey;
- Kim, Hyun Ji;
- Anur, Pavana;
- Wagner, Josiah T.;
- Callahan, Rowan;
- Spiliotopoulos, Elias;
- Kirschbaum, Charles Ward;
- Civitci, Fehmi;
- Spellman, Paul T.;
- Thompson, Reid F.;
- Farsad, Khashayar;
- Naugler, Willscott E.;
- Ngo, Thuy T. M.
Publication type:
Article
Minimal observed impact of HLA genotype on hospitalization and severity of SARS‐CoV‐2 infection.
Published in:
HLA: Immune Response Genetics, 2022, v. 99, n. 6, p. 607, doi. 10.1111/tan.14574
By:
- Nguyen, Austin;
- Yusufali, Tasneem;
- Hollenbach, Jill A.;
- Nellore, Abhinav;
- Thompson, Reid F.
Publication type:
Article
Pencil-beam scanning proton therapy for anal cancer: a dosimetric comparison with intensity-modulated radiotherapy.
Published in:
Acta Oncologica, 2015, v. 54, n. 8, p. 1209, doi. 10.3109/0284186X.2014.1002570
By:
- Ojerholm, Eric;
- Kirk, Maura L.;
- Thompson, Reid F.;
- Zhai, Huifang;
- Metz, James M.;
- Both, Stefan;
- Ben-Josef, Edgar;
- Plastaras, John P.
Publication type:
Article
Widespread Hypomethylation Occurs Early and Synergizes with Gene Amplification during Esophageal Carcinogenesis.
Published in:
PLoS Genetics, 2011, v. 7, n. 3, p. 1, doi. 10.1371/journal.pgen.1001356
By:
- Alvarez, Hector;
- Opalinska, Joanna;
- Li Zhou;
- Sohal, Davendra;
- Fazzari, Melissa J.;
- Yiting Yu;
- Montagna, Christina;
- Montgomery, Elizabeth A.;
- Canto, Marcia;
- Dunbar, Kerry B.;
- Wang, Jean;
- Roa, Juan Carlos;
- Yongkai Mo;
- Bhagat, Tushar;
- Ramesh, K. H.;
- Cannizzaro, Linda;
- Mollenhauer, J.;
- Thompson, Reid F.;
- Suzuki, Masako;
- Meltzer, Stephen
Publication type:
Article
recountmethylation enables flexible analysis of public blood DNA methylation array data.
Published in:
Bioinformatics Advances, 2023, v. 3, n. 1, p. 1, doi. 10.1093/bioadv/vbad020
By:
- Maden, Sean K;
- Walsh, Brian;
- Ellrott, Kyle;
- Hansen, Kasper D;
- Thompson, Reid F;
- Nellore, Abhinav
Publication type:
Article
neoepiscope improves neoepitope prediction with multivariant phasing.
Published in:
Bioinformatics, 2020, v. 36, n. 3, p. 713, doi. 10.1093/bioinformatics/btz653
By:
- Wood, Mary A;
- Nguyen, Austin;
- Struck, Adam J;
- Ellrott, Kyle;
- Nellore, Abhinav;
- Thompson, Reid F
Publication type:
Article
A pipeline for the quantitative analysis of CG dinucleotide methylation using mass spectrometry.
Published in:
Bioinformatics, 2009, v. 25, n. 17, p. 2164, doi. 10.1093/bioinformatics/btp382
By:
- Thompson, Reid F.;
- Suzuki, Masako;
- Lau, Kevin W.;
- Greally, John M.
Publication type:
Article
Tissue-specific dysregulation of DNA methylation in aging.
Published in:
Aging Cell, 2010, v. 9, n. 4, p. 506, doi. 10.1111/j.1474-9726.2010.00577.x
By:
- Thompson, Reid F.;
- Atzmon, Gil;
- Gheorghe, Ciprian;
- Hong Qian Liang;
- Lowes, Christina;
- Greally, John M.;
- Barzilai, Nir
Publication type:
Article
Burden of tumor mutations, neoepitopes, and other variants are weak predictors of cancer immunotherapy response and overall survival.
Published in:
Genome Medicine, 2020, v. 12, n. 1, p. 1, doi. 10.1186/s13073-020-00729-2
By:
- Wood, Mary A.;
- Weeder, Benjamin R.;
- David, Julianne K.;
- Nellore, Abhinav;
- Thompson, Reid F.
Publication type:
Article

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