Skip to main content

Publications

A Comprehensive Framework for early-onset colorectal cancer research. Eng C, Holowatyj AN, Byndloss M, et al. Lancet Oncol. 2022 Jan 25;S1470-2045(21)00588-X.
Advancing Diversity, Equity, and Inclusion in Scientific Publishing
Doubeni CA, Corley DA, Peek RM Jr. Gastroenterology. 2022 Jan;162(1):59-62.e1.
The laminin-binding integrins regulate nuclear factor κB-dependent epithelial cell polarity and inflammation. Yazlovitskaya EM, Plosa E, Bock F, Viquez OM, et al. J Cell Sci. 2021 Dec 15;134(24):jcs259161.
CMV exposure drives long-term CD57+ CD4 memory T-cell inflation following allogeneic stem cell transplant. Yeh AC, Varelias A, Reddy A, Barone SM, et al. Blood. 2021 Dec 30;138(26):2874-2885.
Regulation of Wnt distribution and function by Drosophila glypicans Waghmare I, Page-McCaw A. J Cell Sci. 2022 Feb 1;135(3):jcs259405.
Modeling tuberous sclerosis with organoids Ihrie RA, Henske EP.
Science. 2022 Jan 28;375(6579):382-383.
Preoperative and Postoperative Systemic Therapy for Operable Non-Small-Cell Lung Cancer. Chaft JE, Shyr Y, Sepesi B, Forde PM. J Clin Oncol. 2022 Jan 5.
MIRIAM: A machine and deep learning single-cell segmentation and quantification pipeline for multi-dimensional tissue images McKinley ET, Shao J, Ellis ST, et al. Cytometry A. 2022 Jan 27.
Two New Neutrophil Subsets Define a Discriminating Sepsis Signature Meghraoui-Kheddar A, Chousterman BG, Guillou N; et al. Am J Respir Crit Care Med. 2022 Jan 1;205(1):46-59.
MicroRNA-21 deficiency suppresses prostate cancer progression through downregulation of the IRS1-SREBP-1 signaling pathway. Kanagasabai T, Li G, Shen TH, Gladoun N, et al. Cancer Lett. 2022 Jan 28;525:46-54.
Nano-Particulate Platforms for Vaccine Delivery to Enhance Antigen-Specific CD8+ T-Cell Response. Sharma J, Carson CS, Douglas T, Wilson JT, Joyce S. Methods Mol Biol. 2022;2412:367-398.
Microenvironmental influences on T cell immunity in cancer and inflammation Heintzman DR, Fisher EL, Rathmell JC. Cell Mol Immunol. 2022 Jan 17:1-11.
Viral and cellular oncogenes promote immune evasion Roetman JJ, Apostolova MKI, Philip M. Oncogene2022 Jan 13.
Nrf2 attenuates hyperglycemia-induced nNOS impairment in adult mouse primary enteric neuronal crest cells and normalizes stomach function. Sampath C, Raju AV, Freeman ML, et al. Am J Physiol Gastrointest Liver Physiol. 2022 Jan 27.
Preoperative and Postoperative Systemic Therapy for Operable Non-Small-Cell Lung Cancer. Chaft JE, Shyr Y, Sepesi B, Forde PM. J Clin Oncol. 2022 Feb 20;40(6):546-555. doi: 10.1200/JCO.21.01589. Epub 2022 Jan 5.
Viral and cellular oncogenes promote immune evasion. Roetman JJ, Apostolova MKI, Philip M.Oncogene. 2022 Feb;41(7):921-929. PMID: 35022539 Review.
A Perfusion Bioreactor Model of Tumor-Induced Bone Disease Using Human Cells. Lowen GB, Vanderburgh JP, Florian D, Sterling JAR, et al. Curr Protoc. 2022 Jan;2(1):e333.
Immune-checkpoint inhibitors: long-term implications of toxicity Johnson DB, Nebhan CA, Moslehi JJ, Balko JM. Nat Rev Clin Oncol. 2022 Jan 26:1-14
Diversity in cancer genomics research is a matter of equity and scientific discovery. Tuya Pal. Genetics in Medicine. Published December 10, 2021
Pharmacological Activation of cGAS for Cancer Immunotherapy Garlad K, Rosch J, Carson C, et. al. Front Immunol. 2021 Nov 26;12:753472.
Differential pre-malignant programs and microenvironment chart distinct paths to malignancy in human colorectal polyps. Chen B, Scurrah C, McKinley E. et al. Cell. 2021 Dec 8;S0092-8674 (21)01381.
Prospective study of oral microbiome and gastric cancer risk among Asian, African American and European American populations.
Yang Y, Long J, Wang C. et al. Int J Cancer. 2021 Oct 18.
Protective Role of Spermidine in Colitis and Colon Carcinogenesis.
Gobert A, Latour Y, Asim M. et al. Gastroenterology. 2021 Nov 10;S0016-5085(21)03727-6.
Supermeres are functional extracellular nanoparticles replete with disease biomarkers and therapeutic targets. Zhang Q, Jeffesen D, Higginbotham J. et al. Nature Cell Biology. 2021 Dec;23(12):1240-1254.
A pan-cancer immunogenomic atlas for immune checkpoint blockade immunotherapy. Yang J, Zhao S, Wang J. et al. Cancer Res. 2021
Dec 13.
Apoptolidin family glycomacrolides target leukemia through inhibition of ATP synthase Reisman B, Guo H, Ramsey H. et al. Nat Chem Biol. 2021 Dec 2.

Suppressing MDSC Recruitment to the Tumor Microenvironment by Antagonizing CXCR2 to Enhance the Efficacy of Immunotherapy.
Bullock K, Richmond R. Cancers. December 2021 13(24):6293.

Targeted Deletion of CXCR2 in Myeloid Cells Alters the Tumor Immune Environment to Improve Antitumor Immunity. Yang, J, Yan C, Vilgelm A, et al. Cancer Immunol Res. 2021 Feb;9(2):200-213.

DDR1 contributes to kidney inflammation and fibrosis by promoting the phosphorylation of BCR and STAT3. Borza C, Bolas G, Bock F, et al. JCI Insight. 2021 Dec23;e150887.

Up-regulation of Aquaporin 5 Defines Spasmolytic Polypeptide-Expressing Metaplasia and Progression to Incomplete Intestinal Metaplasia. Lee S, Jang B, Min J, et al. Cell Mol Gastroenterol Hepatol. 2022;13(1):199-217.

HDAC inhibitors stimulate LIFR when it is repressed by hypoxia or PTHrP in breast cancer. Courtney Edwards, Miranda Clements, et al. J Bone Oncol. 2021 Dec1;31:100407.
Multi-omics analysis identifies therapeutic vulnerabilities in triple-negative breast cancer subtypes Lehman B, Colaprico A, Silva T, et al.
Nat Commun. 2021 Nov 1;12(1):6276
Dormancy in the Tumor Microenvironment Omokehinde T, Johnson RW. Adv Exp Med Biol. 2021;1329:35-49.
The therapeutic implications of immunosuppressive tumor aerobic glycolysis Reinfeld B, Rathmell WK, Kim TK, Rathmell J. Cell Mol Immunol. 2021 July 8.

Rac1 promotes kidney collecting duct integrity by limiting actomyosin activity. Fabian Bock, Bertha Elias, Xinyu Dong, et al Journal of Cell Biology. 2021 Nov 1;220
MTG16 (CBFA2T3) represses E protein dependent transcription to regulate colonic secretory cell differentiation, epithelial regeneration, and tumorigenesis. Brown R, Jacobse J, Anant S, et al. BioRxiv
MTHFD2 is a metabolic checkpoint controlling effector and regulatory T cell fate and function Sugiura A, Andrejeva G, Voss K, et al. Immunity. 2021 Nov3;S1074-7613 (21)00448-9
Integrative computational immunogenomic profiling of cortisol-secreting adrenocortical carcinoma Baechle JJ, Hanna DN, Sekhar KR, et al. J Cell Mol Med. 2021 Oct 19.
CCL11 exacerbates colitis and inflammation-associated colon tumorigenesis Polosukhina D, Singh K, Asim M, et al. Oncogene. 2021 Oct 8.
Two New Neutrophil Subsets Define a Discriminating Sepsis Signature Meghraoui-Kheddar A, Chousterman BG, Guillou N, et al. Am J Respir Crit Care Med. 2021 Nov 3.
MicroRNA-21 deficiency suppresses prostate cancer progression through downregulation of the IRS1-SREBP-1 signaling pathway Kanagasabai T, Li G, Shen TH, Gladoun N, et al. Cancer Lett. 2021 Oct 2;525:46-54.
Increasing Area Deprivation Index negatively impacts ovarian cancer survival. Hufnagel DH, Khabele D, Yull FE, et al. Cancer Epidemiol. 2021 Oct;74:102013.
Increasing Area Deprivation Index negatively impacts ovarian cancer survival Hufnagel DH, Khabele D, Yull FE, Hull PC, Schildkraut J, Crispens MA, Beeghly-Fadiel A. Cancer Epidemiol. 2021 Aug 23;74:102013. PMID: 34438316
Induction of apically mistrafficked epiregulin disrupts epithelial polarity via aberrant EGFR signaling Singh B, Bogatcheva G, Krystofiak E, McKinley ET, Hill S, Rose KL, Higginbotham JN, Coffey RJ. J Cell Sci. 2021 Aug 18:jcs.255927. PMID: 34406412
Unsupervised machine learning reveals key immune cell subsets in COVID-19, rhinovirus infection, and cancer therapy Barone SM, Paul AG, Muehling LM, Lannigan JA, Kwok WW, Turner RB, Woodfolk JA, Irish JM.
Elife. 2021 Aug 5;10:e64653. PMID: 34350827
MuSyC is a consensus framework that unifies multi-drug synergy metrics for combinatorial drug discovery Wooten DJ, Meyer CT, Lubbock ALR, Quaranta V, Lopez CF. Nat Commun. 2021 Jul 29;12(1):4607. PMID: 34326325
Evaluation of Thyroid Nodule Malignant Neoplasms and Obesity Among Children and Young Adults. Carlos Ortega, Jean-Nicole Gallant, Sheau-Chiann Chen, Fei Ye, Huiing Want, Ryan Belcher, Vivian Weiss. Jama Netw Open. 2021 July 1;4 (7):e2116369.
Tissue-specific expression of p73 ad p63 isoforms in human tissues
Clayton Marshall, J Scott Beeler, Brian Lehmann, Paula Gonzalez-Ericsson, Jennifer Pietenpol, et al. Cell Death & Disease Article # 745 (2021)
CMV exposure drives long-term CD57+ CD4 memory T cell inflation following allogeneic stem cell transplant. Yeh AC, Varelias A, Reddy A, et  al.  Blood. 2021 Jun 3:blood.2020009492.
Targeted Deletion of CXCR2 in Myeloid Cells Alters the Tumor Immune Environment to Improve Antitumor Immunity Yang J, Yan C, Vilgelm A, et al. Cancer Immunol Res. 2021 Feb;9 92 0: 200-213.
Thunor: visualization and analysis of high-throughput dose-response datasets. Lubbock ALR, Harris LA, Quaranta V, et al.  Nucleic Acids Res. 2021 Jul 2;49(W1):W633-W640.
Unsupervised logic-based mechanism inference for network-driven biological processes. Prugger M, Einkemmer L, Beik SP, et al.  PLoS Comput Biol. 2021 Jun 2;17(6):e1009035.
Effect of Intravenous Chemotherapy Regimen on Globe Salvage Success Rates for Retinoblastoma Based on Disease Class-A Meta-Analysis
Daniels AB, Patel SN, Milam RW, et al. Cancers (Basel). 2021 May 6;13(9):2216.
Single-cell protein activity analysis identifies recurrence-associated renal tumor macrophages. Obradovic A, Chowdhury N, Haake SM, et al. Cell. 2021 May 27;184(11):2988-3005.e16.
Prostate cancer risk variants of the HOXB genetic locus
Dupont WD, Breyer JP, Johnson SH, et al.
Sci Rep. 2021 May 31;11(1):11385.
Inhibition of the PI3K/mTOR Pathway in Breast Cancer to Enhance Response to Immune Checkpoint Inhibitors in Breast Cancer.
Yan C, Yang J, Saleh N, et al. Int J Mol Sci. 2021 May 14;22(10):5207.
The Complex Integration of T-cell Metabolism and Immunotherapy.
Madden MZ, Rathmell JC. Cancer Discovery 2021 July;11(7):1636-1643.

Chemoprevention Against Gastric Cancer  Shah SC, Peek RM Jr. Gastrointest Endosc Clin N Am. 2021 Jul;31(3):519-542.

Novel induction of CD40 expression by tumor cells with RAS/RAF/PI3K pathway inhibition augments response to checkpoint blockade 
Yan C, Saleh N, Yang J, Nebhan C, et al. Mol Cancer. 2021 Jun 6;20 (1):85.

Over-Generalizing About GC (Hypoxia): Pitfalls of Limiting Breadth of Experimental Systems and Analyses in Framing Informatics Conclusions
Boothby MR, Raybuck A, Cho SH, et al. Front Immunol. 2021 May 10;12:664249.

Sunitinib and Axitinib increase secretion and glycolytic activity of small extracellular vesicles in renal cell carcinoma Lim AR, Vincent BG, Weaver AM, et al. Cancer Gene Ther. 2021 Jun 4.

Isocitrate dehydrogenase inhibitor-driven differentiation may resemble secondary graft failure in post-allogeneic haematopoietic cell transplantation relapsed acute myeloid leukaemia. Rasche A, Mason EF, Strickland SA, et al. Haematol. 2021 Jun 7.

Helicobacter pylori: a stealth assassin Wroblewski LE, Peek RM Jr. Trends Cancer. 2021 Jun 9:S2405-8033(21)00108-4.

Molecular determinants for α-tubulin methylation by SETD2
Kearns S, Mason FM, Rathmell WK, et al.  J Biol Chem. 2021 Jun 19;297(1):100898.

Colon epithelial cell TGFβ signaling modulates the expression of tight junction proteins and barrier function in mice Paula Marincola Smith, Yash A Choksi, et.al. Am J Physiol Gastrointest Liver Physiol. 2021 Jun 1;320(6):G936-G957.

Measurement of Metabolites from Migrating Cells. Demond Williams, Barbara Fingleton. Methods Mol Biol. 2021;2294:143-150.

Targeting Histone Modifications in Bone and Lung Metastatic Cancers Edwards Courtney, Johnson RW. Curr Osteoporos Rep. 2021 Mar 15. 

First-in-human PET imaging and estimated radiation dosimetry of L-[5- 11 C]-glutamine in patients with metastatic colorectal cancer Cohen, A, et al. J Nucl Med. 2021 Apr 30.

EphA2 Is a Clinically Relevant Target for Breast Cancer Bone Metastatic Disease Vaught D, et al. JBMR Plus. 2021 Mar 9;5(4).

Development and Evaluation of a Method to Correct Misinterpretation of Clinical Trial Results With Long-term Survival Chih Yuan Hsu, Emily Pei Ying Lin, Yu Shyr. JAMA Oncol. 2021 Apr 15.

Ex Vivo High Salt Activated Tumor-Primed CD4+T Lymphocytes Exert a Potent Anti-Cancer Response Tiriveedhi V, et al. Cancers (Basel). 2021 Apr 2;13 (7):1690.

Changes in peripheral and local tumor immunity after neoadjuvant chemotherapy reshape clinical outcomes in patients with breast cancer. Margaret L. Axelrod, Mellissa Nixon, Paula I. Gonzalez-Ericsson, Riley E. Bergman, et al. Clin Cancer Res. 

Cell-programmed nutrient partitioning in the tumor microenvironment
Reinfeld, B, Madden M, Wolf M, et al. Nature. 2021 May;593(7858):282-288

Metabolic modulation by CDK4/6 inhibitor promotes chemokine-mediated recruitment of T cells into mammary tumors  Uzhachenko R, Bharti V, et al. Cell Rep. 2021 Apr 6; 35(1):1089444.

The Complex Integration of T-cell Metabolism and Immunotherapy

Madden MZ, Rathmell JC. Cancer Discov. 2021 Apr1.

Obesity, Immunity, and Cancer Rathmell JC. N Engl J Med. 2021 Mar 25;384(12):1160-1162.

Genome-wide CRISPR screen identifies noncanonical NF-κB signaling as a regulator of density-dependent proliferation 
Maria Fomicheva, Ian Macara. eLife 2020 Nov 13;9.

Incorporating Both Genetic and Tobacco Smoking Data to Identify High-Risk Smokers for Lung Cancer Screening
Guochong Jia, Wanqing Wen, Pierre Massion, Xiao-Ou Shu, Wei Zheng. Carcinogenesis, bgab018

Circulating Myeloid Regulatory Cells: Promising Biomarkers in B-Cell Lymphomas. 
Juliette Ferrant, Faustine Lhomme, Simone Le Gallou, Jonathan Irish, et al. Front Immunol. 2021 Feb 2;11:623993

The delta isoform of PI3K predominates in chronic myelomonocytic leukemia and can be targeted effectively with umbralisib and ruxolitinib
Matthew Villaume, M Pia Arrate, Haley Ramsey, et al. Exp Hematol. 2021 Feb 19;S0301-472X(21)00089

Triple-Negative Breast Cancer: Breast Tumors With an Identity Crisis
Sara Nunnery, Ingrid Mayer and Justin Balko. Cancer J. 2021 Jan-Feb 01;27(1):2-7

LncRNAs: Promising new targets in pulmonary fibrosis
Zhang S, Chen H, Yue D, Blackwell TS, Lv C, Song.J Gene Med. 2021 Feb 3:e3318.

Paradigm-Shifting Research in Gastroenterology, Hepatology, and Nutrition: A Top 20 List of Articles Published in 2020
Corley DA, Peek RM Jr, Simpson BA. Gastroenterology. 2021 Jan 14:S0016-5085(21)00087-1

Definition of a small core transcriptional circuit regulated by AML1-ETO
Stengel K, Ellis J, Spielman C, et al. Molecular Cell, Vol 81, issue 3, Feb 2021, pages 530-545

Pushing the boundaries with collision collaboration: the marriage of ideas
Rathmell JC, Rathmell WK. J Clin Invest. 2021 Jan 19;131(2):e145964

Inertial-based Fluidic Platform for Rapid Isolation of Blood-borne Pathogens
Batcho EC, Miller S, Cover TL, McClain MS, Marasco C, Bell CS, Giorgio TD. Mil Med. 2021 Jan 25;186(Suppl 1):129-136.

Disruption of the integrin-linked kinase (ILK) pseudokinase domain affects kidney development in mice
Bulus N, Brown KL, Mernaugh G, Böttcher A, Dong X, Sanders CR, Pozzi A, Fässler R, Zent R. J Biol Chem. 2021 Feb 1:100361.

Claudin-2 inhibits renal clear cell carcinoma progression by inhibiting YAP-activation
Balawant Kumar, Rizwan Ahmad, Giovanna Giannico, Roy Zent, et al. J Exp Clin Cancer Res. 2021 Feb 23;40(1):77.

NCCN Guidelines Insights:Non-Small Cell Lung Cancer, Version 2.2021 
David ettinger, Douglas Wood, Dara Aisner, et al.J. Natl Compr Canc Netw. 2021 Mar 2;19(3):254-266.

Scientific Rigor in the Age of COVID-19 Shyr Y, Berry LD, Hsu CY. JAMA Oncol. 2021 Feb 1;7(2):171-172.