Current Trainees

Dr. Kaiser-Powers' Publications

1. Köhler M, Paul F, Janke K, Sturtz S, Preukschat D, Ostlender S, Kerekes MF, Kaiser T. Comparative effectiveness of disease-modifying therapies for highly active relapsing-remitting multiple sclerosis despite previous treatment - a systematic review and network meta-analysis. BMC Neurol. 2025 Aug 9;25(1):328. doi: 10.1186/s12883-025-04338-7. PMID: 40783682; PMCID: PMC12335774.

2. Burger PB, Hu X, Balabin I, Muller M, Stanley M, Joubert F, Kaiser TM. FEP Augmentation as a Means to Solve Data Paucity Problems for Machine Learning in Chemical Biology. J Chem Inf Model. 2024 Apr 23. doi: 10.1021/acs.jcim.4c00071. Epub ahead of print. PMID: 38651738.

3. El-Awamry A, Zheng F, Kaiser T, Khaliel M. Harmonic FMCW Radar System: Passive Tag Detection and Precise Ranging Estimation. Sensors (Basel). 2024 Apr 15;24(8):2541. doi: 10.3390/s24082541. PMID: 38676158; PMCID: PMC11054317.

4. Boatman S, Kaiser T, Nalluri-Butz H, Khan MH, Dietz M, Kohn J, Johnson AJ, Gaertner WB, Staley C, Jahansouz C. 2023. Diet-induced shifts in the gut microbiota influence anastomotic healing in a murine model of colonic surgery. Gut Microbes 5(2):2283147. 

5. Gates TJ, Yuan C, Shetty M, Kaiser T, Nelson AC, Chauhan A, Starr TK, Staley C, Subramanian S. 2023. Fecal Microbiota Restoration Modulates the Microbiome in Inflammation-Driven Colorectal Cancer. Cancers (Basel). 15(8):2260.

6. Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Halaweish H, Kaiser T, Holtan SG, Khoruts A, Weisdorf DJ, Staley C. 2022. Compilation of longitudinal gut microbiome, serum metabolome, and clinical data in acute myeloid leukemia.

Sci. Data 9(1):468.

7. Saqr A, Carlson B, Staley C, Rashidi A, Al-Kofahi M, Kaiser T, Holtan S, MacMillan M, Young JA, Jurdi NE, Weisdorf D, Khoruts A, Jacobson PA. 2022. Reduced Enterohepatic Recirculation of Mycophenolate and Lower Blood Concentrations Are Associated with the Stool Bacterial Microbiome after Hematopoietic Cell Transplantation. Transplant Cell Ther. 28(7):372.e1-372.e9.

8. Rashidi, A., Peled, J., Ebadi, M., Rehman, T., Elhusseini, H., Marcello, L., Halaweish, H., Kaiser, T., Holtan, S., Khoruts, A., Weisdorf, D., Staley, C..2022. Protective effect of intestinal blautia against neutropenic fever in allogeneic transplant patients. Clin. Infect. Dis. 75(11):1912-1920. 

9. Kaiser, T., & Jahansouz, C., & Staley, C. 2022. Network-based approaches for the investigation of microbial community structure and function using metagenomics-based data. Future Microbiol. 17(1): 621-631.

10.  Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Halaweish HF, Kaiser T, Holtan SG, Khoruts A, Weisdorf DJ, Staley C. 2022. Lasting shift in the gut microbiota in patients with acute myeloid leukemia. Blood Adv. 6(11):3451-3457.

11. Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Nalluri H, Kaiser T, Ramamoorthy S, Holtan SG, Khoruts A, Weisdorf DJ, Staley C. 2021. Altered microbiota-host metabolic cross talk preceding neutropenic fever in patients with acute leukemia. Blood Adv. 5(20):3937-3950.

12. Zhu Z, Kaiser T, Staley C. 2021. Antibiotic Conditioning and Single Gavage Allows Stable Engraftment of Human Microbiota in Mice. Methods Mol. Biol. 2327:281-291. 

13. Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Nalluri H, Kaiser T, Holtan SG, Khoruts A, Weisdorf DJ, Staley C. 2021. Effect of COVID-19 precautions on the gut microbiota and nosocomial infections. Gut Microbes 13(1):1-10. 

14. Kaiser T., & Nalluri H., & Zhu Z., & Staley C. 2021. Donor Microbiota Composition and Housing Affect Recapitulation of Obese Phenotypes in a Human Microbiota-Associated Murine Model. Front. Cell. Infection Microbiol. 11(614218)

15. Rashidi, A., Kaiser, T., Ebadi, M., Holtan, S., Ur Rehman, T.,  Weisdorf, D.,  Khoruts, A., Staley, C. 2020. Circulating bacterial DNA and neutropenic fever during anti-leukaemia chemotherapy. Br. J. Haematol. 191(2): e55-e58.

16. Nicol, M., Eneh, P., Nakalega, R., Kaiser, T., Kabwigu, S., Isingel, E., Beksinska, M., Sykes, C., Fowler, M., Brown, T., Staley, C., Kiweewa Matovu, F. 2020. Depot Medroxyprogesterone Acetate and the Vaginal Microbiome as Modifiers of Tenofovir Diphosphate and Lamivudine Triphosphate Concentrations in the Female Genital Tract of Ugandan Women: Implications for Tenofovir Disoproxil Fumarate/Lamivudine in Preexp. Clinical Infectious Diseases 70(8): 1717-1724.

17. Rashidi A., & Kaiser T., & Holtan S., & Weisdorf D., & Khoruts A., & Staley C. 2018. Pre-transplant recovery of microbiome diversity without recovery of the original microbiome. Bone Marrow Transplant. 54(1): 1115-1117.

18. Ahmed, W., Staley, C., Kaiser, T., Sadowsky, M., Kozak, S., Beale, D., Simpson, S. 2018. Decay of sewage-associated bacterial communities in fresh and marine environmental waters and sediment. Appl .Microbiol .Biotechnol. 102(1): 7159-7170.

19. Tomasek, A., Staley, C., Wang, P., Kaiser, T., Lurndahl, N., Kozarek, J., Hondzo, M., Sadowsky, M. 2017. Increased Denitrification Rates Associated with Shifts in Prokaryotic Community Composition Caused by Varying Hydrologic Connectivity. Front. Microbiol. 8(1): 10.

Dr. Kazadi's Publications

1. Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Kazadi D, Halaweish H, Khan MH, Hoeschen A, Cao Q, Luo X, Kabage AJ, Lopez S, Ramamoorthy S, Holtan SG, Weisdorf DJ, Khoruts A, Staley C. Multi-omics Analysis of a Fecal Microbiota Transplantation Trial Identifies Novel Aspects of Acute GVHD Pathogenesis. Cancer Res Commun. 2024 Jun 10;4(6):1454-1466. doi: 10.1158/2767-9764.CRC-24-0138. PMID: 38767452; PMCID: PMC11164016.

2. Katoto PD, Muttamba W, Bahizire E, Malembaka EB, Bosa HK, Kazadi DM, Lubambo G, Siangoli FB, Bakamutumaho B, Wayengera M, Mavungu Landu DJ, Mukadi-Bamuleka D, Mbala P, Loeb M, Kirenga B, Muyembe-Tamfum JJ. Shifting transmission patterns of human mpox in South Kivu, DR Congo. Lancet Infect Dis. 2024 Jun;24(6):e354-e355. doi: 10.1016/S1473-3099(24)00287-1. Epub 2024 May 1. PMID: 38703785.

3. McQuiston JH, Luce R, Kazadi DM, Bwangandu CN, Mbala-Kingebeni P, Anderson M, Prasher JM, Williams IT, Phan A, Shelus V, Bratcher A, Soke GN, Fonjungo PN, Kabamba J, McCollum AM, Perry R, Rao AK, Doty J, Christensen B, Fuller JA, Baird N, Chaitram J, Brown CK, Kirby AE, Fitter D, Folster JM, Dualeh M, Hartman R, Bart SM, Hughes CM, Nakazawa Y, Sims E; CDC 2024 Clade I Mpox Response Team; Christie A, Hutson CL. U.S. Preparedness and Response to Increasing Clade I Mpox Cases in the Democratic Republic of the Congo - United States, 2024. MMWR Morb Mortal Wkly Rep. 2024 May 16;73(19):435-440. doi: 10.15585/mmwr.mm7319a3. PMID: 38753567; PMCID: PMC11115432.

4. Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Kazadi D, Halaweish H, Khan MH, Hoeschen A, Cao Q, Luo X, Kabage AJ, Lopez S, Ramamoorthy S, Holtan SG, Weisdorf DJ, Khoruts A, Staley C. Multi-omics analysis of a fecal microbiota transplantation trial identifies novel aspects of acute graft-versus-host disease pathogenesis. Cancer Res Commun. 2024 May 20. doi: 10.1158/2767-9764.CRC-24-0138. Epub ahead of print. PMID: 38767452.

5. Laverdure S, Kazadi D, Kone K, Callier V, Dabitao D, Dennis D, Haidara MC, Hunsberger S, Mbaya OT, Ridzon R, Sereti I, Shaw-Saliba K; InVITE Study Team. SARS-CoV-2 seroprevalence in vaccine-naïve participants from the Democratic Republic of Congo, Guinea, Liberia, and Mali. Int J Infect Dis. 2024 May;142:106985. doi: 10.1016/j.ijid.2024.106985. Epub 2024 Feb 28. PMID: 38417612.

6. Katoto PD, Muttamba W, Bahizire E, Malembaka EB, Bosa HK, Kazadi DM, Lubambo G, Siangoli FB, Bakamutumaho B, Wayengera M, Mavungu Landu DJ, Mukadi-Bamuleka D, Mbala P, Loeb M, Kirenga B, Muyembe-Tamfum JJ. Shifting transmission patterns of human mpox in South Kivu, DR Congo. Lancet Infect Dis. 2024 May 1:S1473-3099(24)00287-1. doi: 10.1016/S1473-3099(24)00287-1. Epub ahead of print. PMID: 38703785.

7. A. Rashidi, M. Ebadi, T.U. Rehman, H. Elhusseini, D. Kazadi, H. Halaweish, M.H. Khan, A. Hoeschen, Q. Cao, X. Luo, A.J. Kabage, S. Lopez, S.G. Holtan, D.J. Weisdorf, A. Khoruts, C. Staley. 2023. Potential of Fecal Microbiota Transplantation to Prevent Acute GVHD: Analysis from a Phase II Trial. Clin. Cancer Res. 29(23):4920-4929. 

8. A. Rashidi, M. Ebadi, T.U. Rehman, H. Elhusseini, D. Kazadi, H. Halaweish, M.H. Khan, A. Hoeschen, Q. Cao, X. Luo, A.J. Kabage, S. Lopez, S.G. Holtan, D.J. Weisdorf, A. Khoruts, C. Staley. 2023. Randomized Double-Blind Phase II Trial of Fecal Microbiota Transplantation Versus Placebo in Allogeneic Hematopoietic Cell Transplantation and AML. J. Clin. Oncol. 41(34):5306-5319.

9. A. Rashidi, M. Ebadi, T.U. Rehman, H. Elhusseini, D. Kazadi, H. Halaweish, MH Khan, A. Hoeschen, Q. Cao, X. Luo, A.J. Kabage, S. Lopez, S.G. Holtan, D.J. Weisdorf, A. Khoruts, C. Staley. 2023. Potential of fecal microbiota transplantation to prevent acute graft-versus-host disease: Analysis from a phase 2 trial. Clin. Cancer Res. Online ahead of print.

10. D. Kazadi , D. Zychowski, C. Skipper, P. Teravskis, G.T. Hansen, E.E. Ordaya. 2022. Clostridium Tetani Bacteremia From a Suspected Cutaneous Source.  Cureus Mar 4:14(3):e22848. PMID: 35382192

11.  Kazadi D, Lim J, Rothschild G, Grinstein V, Laffleur B, Becherel O, Lavin MJ, Basu U. 2020. Effects of senataxin and RNA exosome on B-cell chromosomal integrity. Heliyon 6(3):e03442.  PMID: 321953833

12. Pefanis E, Wang J, Rothschild G, Lim J, Kazadi D, Sun J, Federation A, Chao J, Elliott O, Liu ZP, Economides AN, Bradner JE, Rabadan R, Basu U. 2015. RNA exosome-regulated long non-coding RNA transcription controls super-enhancer activity. Cell 161(4):774-89.  PMID: 25957685

13.  Lim J, Giri PK, Kazadi D, Laffleur B, Zhang W, Grinstein V, Pefanis E, Brown LM, Ladewig E, Martin O, Chen Y, Rabadan R, Boyer F, Rothschild G, Cogné M, Pinaud E, Deng H, Basu U. 2017. Nuclear Proximity of Mtr4 to RNA Exosome Restricts DNA Mutational Asymmetry. Cell 69(3):523-537. PMID: 28431250 

14. Keim C, Kazadi D, Rothschild G, Basu U. 2013. Regulation of AID, the B-cell genome mutator. Genes Dev. 27(1):1-17.  PMID: 23307864 

15. Sun J, Keim CD, Wang J, Kazadi D, Oliver PM, Rabadan R, Basu U. 2013. E3-ubiquitin ligase Nedd4 determines the fate of AID-associated RNA polymerase II in B cells. Genes Dev. 27(16):1821-33. PMID: 23964096 

Dr. Kumka's Publications

1. Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Kazadi D, Halaweish H, Khan MH, Hoeschen A, Cao Q, Luo X, Kabage AJ, Lopez S, Ramamoorthy S, Holtan SG, Weisdorf DJ, Khoruts A, Staley C. Multi-omics Analysis of a Fecal Microbiota Transplantation Trial Identifies Novel Aspects of Acute GVHD Pathogenesis. Cancer Res Commun. 2024 Jun 10;4(6):1454-1466. doi: 10.1158/2767-9764.CRC-24-0138. PMID: 38767452; PMCID: PMC11164016.

2. Katoto PD, Muttamba W, Bahizire E, Malembaka EB, Bosa HK, Kazadi DM, Lubambo G, Siangoli FB, Bakamutumaho B, Wayengera M, Mavungu Landu DJ, Mukadi-Bamuleka D, Mbala P, Loeb M, Kirenga B, Muyembe-Tamfum JJ. Shifting transmission patterns of human mpox in South Kivu, DR Congo. Lancet Infect Dis. 2024 Jun;24(6):e354-e355. doi: 10.1016/S1473-3099(24)00287-1. Epub 2024 May 1. PMID: 38703785.

3. McQuiston JH, Luce R, Kazadi DM, Bwangandu CN, Mbala-Kingebeni P, Anderson M, Prasher JM, Williams IT, Phan A, Shelus V, Bratcher A, Soke GN, Fonjungo PN, Kabamba J, McCollum AM, Perry R, Rao AK, Doty J, Christensen B, Fuller JA, Baird N, Chaitram J, Brown CK, Kirby AE, Fitter D, Folster JM, Dualeh M, Hartman R, Bart SM, Hughes CM, Nakazawa Y, Sims E; CDC 2024 Clade I Mpox Response Team; Christie A, Hutson CL. U.S. Preparedness and Response to Increasing Clade I Mpox Cases in the Democratic Republic of the Congo - United States, 2024. MMWR Morb Mortal Wkly Rep. 2024 May 16;73(19):435-440. doi: 10.15585/mmwr.mm7319a3. PMID: 38753567; PMCID: PMC11115432.

4. Rashidi A, Ebadi M, Rehman TU, Elhusseini H, Kazadi D, Halaweish H, Khan MH, Hoeschen A, Cao Q, Luo X, Kabage AJ, Lopez S, Ramamoorthy S, Holtan SG, Weisdorf DJ, Khoruts A, Staley C. Multi-omics analysis of a fecal microbiota transplantation trial identifies novel aspects of acute graft-versus-host disease pathogenesis. Cancer Res Commun. 2024 May 20. doi: 10.1158/2767-9764.CRC-24-0138. Epub ahead of print. PMID: 38767452.

5. Laverdure S, Kazadi D, Kone K, Callier V, Dabitao D, Dennis D, Haidara MC, Hunsberger S, Mbaya OT, Ridzon R, Sereti I, Shaw-Saliba K; InVITE Study Team. SARS-CoV-2 seroprevalence in vaccine-naïve participants from the Democratic Republic of Congo, Guinea, Liberia, and Mali. Int J Infect Dis. 2024 May;142:106985. doi: 10.1016/j.ijid.2024.106985. Epub 2024 Feb 28. PMID: 38417612.

6. Katoto PD, Muttamba W, Bahizire E, Malembaka EB, Bosa HK, Kazadi DM, Lubambo G, Siangoli FB, Bakamutumaho B, Wayengera M, Mavungu Landu DJ, Mukadi-Bamuleka D, Mbala P, Loeb M, Kirenga B, Muyembe-Tamfum JJ. Shifting transmission patterns of human mpox in South Kivu, DR Congo. Lancet Infect Dis. 2024 May 1:S1473-3099(24)00287-1. doi: 10.1016/S1473-3099(24)00287-1. Epub ahead of print. PMID: 38703785.

7. A. Rashidi, M. Ebadi, T.U. Rehman, H. Elhusseini, D. Kazadi, H. Halaweish, M.H. Khan, A. Hoeschen, Q. Cao, X. Luo, A.J. Kabage, S. Lopez, S.G. Holtan, D.J. Weisdorf, A. Khoruts, C. Staley. 2023. Potential of Fecal Microbiota Transplantation to Prevent Acute GVHD: Analysis from a Phase II Trial. Clin. Cancer Res. 29(23):4920-4929. 

8. A. Rashidi, M. Ebadi, T.U. Rehman, H. Elhusseini, D. Kazadi, H. Halaweish, M.H. Khan, A. Hoeschen, Q. Cao, X. Luo, A.J. Kabage, S. Lopez, S.G. Holtan, D.J. Weisdorf, A. Khoruts, C. Staley. 2023. Randomized Double-Blind Phase II Trial of Fecal Microbiota Transplantation Versus Placebo in Allogeneic Hematopoietic Cell Transplantation and AML. J. Clin. Oncol. 41(34):5306-5319.

9. A. Rashidi, M. Ebadi, T.U. Rehman, H. Elhusseini, D. Kazadi, H. Halaweish, MH Khan, A. Hoeschen, Q. Cao, X. Luo, A.J. Kabage, S. Lopez, S.G. Holtan, D.J. Weisdorf, A. Khoruts, C. Staley. 2023. Potential of fecal microbiota transplantation to prevent acute graft-versus-host disease: Analysis from a phase 2 trial. Clin. Cancer Res. Online ahead of print.

10. D. Kazadi , D. Zychowski, C. Skipper, P. Teravskis, G.T. Hansen, E.E. Ordaya. 2022. Clostridium Tetani Bacteremia From a Suspected Cutaneous Source.  Cureus Mar 4:14(3):e22848. PMID: 35382192

11.  Kazadi D, Lim J, Rothschild G, Grinstein V, Laffleur B, Becherel O, Lavin MJ, Basu U. 2020. Effects of senataxin and RNA exosome on B-cell chromosomal integrity. Heliyon 6(3):e03442.  PMID: 321953833

12. Pefanis E, Wang J, Rothschild G, Lim J, Kazadi D, Sun J, Federation A, Chao J, Elliott O, Liu ZP, Economides AN, Bradner JE, Rabadan R, Basu U. 2015. RNA exosome-regulated long non-coding RNA transcription controls super-enhancer activity. Cell 161(4):774-89.  PMID: 25957685

13.  Lim J, Giri PK, Kazadi D, Laffleur B, Zhang W, Grinstein V, Pefanis E, Brown LM, Ladewig E, Martin O, Chen Y, Rabadan R, Boyer F, Rothschild G, Cogné M, Pinaud E, Deng H, Basu U. 2017. Nuclear Proximity of Mtr4 to RNA Exosome Restricts DNA Mutational Asymmetry. Cell 69(3):523-537. PMID: 28431250 

14. Keim C, Kazadi D, Rothschild G, Basu U. 2013. Regulation of AID, the B-cell genome mutator. Genes Dev. 27(1):1-17.  PMID: 23307864 

15. Sun J, Keim CD, Wang J, Kazadi D, Oliver PM, Rabadan R, Basu U. 2013. E3-ubiquitin ligase Nedd4 determines the fate of AID-associated RNA polymerase II in B cells. Genes Dev. 27(16):1821-33. PMID: 23964096 

Dr. Lewandowski's Publications

1. Mendelson JB, Sternbach JD, Blake JC, Kim M, Moon RA, Raveendran RM, Hartweck LM, Tollison W, Lahiri M, Carney JP, Markowski T, Higgins L, Lewandowski CT, Kazmirczak F, Choudhary G, Prins KW. Multi-omic Evaluations Nominate an ER-Mitochondrial Axis and Inflammatory Macrophage as Drivers of Right Atrial Dysfunction. bioRxiv [Preprint]. 2025 Mar 25:2025.03.22.644722. doi: 10.1101/2025.03.22.644722. PMID: 40196578; PMCID: PMC11974768.

2. Velma GR, Laham MS, Lewandowski C, Valencia-Olvera AC, Balu D, Moore A, Ackerman-Berrier M, Rychetsky P, Penton C, Musku SR, Annadurai A, Sulaiman MI, Ma N, J Thatcher GR. Nonlipogenic ABCA1 Inducers (NLAI) for Alzheimer's Disease Validated in a Mouse Model Expressing Human APOE3/APOE4. J Med Chem. 2024 Aug 27. doi: 10.1021/acs.jmedchem.4c00733. Epub ahead of print. PMID: 39191400.

3. Lewandowski, C.T., Laham, M.S., & Thatcher, G.R.J. 2022. Remembering your A, B, C's: Alzheimer's disease and ABCA1. Acta Pharm. Sin. B 12(3): 995-1018.

4. Lewandowski, C.T., Khan, M.W., Ben Aissa, M., Dubrovskyi, O., Ackerman-Berrier, M., LaDu, M.J., Layden, B.T., & Thatcher, G.R.J. 2021. Metabolomic analysis of a selective ABCA1 inducer in obesogenic challenge provides a rationale for therapeutic development. EBioMedicine 66(1): 103287.

5. Ben Aissa, M., Lewandowski, C.T., Ratia, K.M., Lee, S.H., Layden, B.T., LaDu, M.J., & Thatcher, G.R.J. 2021. Discovery of nonlipogenic ABCA1 inducing compounds with potential in Alzheimer's disease and type 2 diabetes. ACS Pharmacol. Transl. Sci. 4(1): 143-154.

6. Lewandowski, C.T., Maldonado Weng, J., & LaDu, M.J. 2020. Alzheimer's disease pathology in APOE transgenic mouse models: the who, what, when, where, why, and how. Neurobiol. Dis. 139(1): 104811.

7. Khasabova, I.A., Yao, X., Paz, J., Lewandowski, C.T., Lindberg, A.E., Coicou, L., Burlakova, N., Simone, D.A., & Seybold, V.S. 2014. JZL184 is anti-hyperalgesic in a murine model of cisplatin-induced peripheral neuropathy. Pharmacol. Res. 90(1): 67-75.

8. Peterson, K.L., Dang, J.V., Weitz, E.A., Lewandowski, C., & Pierre, V.C. 2014. Effect of lanthanide complex structure on cell viability and association. Inorg. Chem. 53(12): 6013-6021.

9. Weitz, E.A., Lewandowski, C., Smolensky, E.D., Marjanska, M., & Pierre, V.C. 2013. A magnetoplasmonic imaging agent for copper(I) with dual response by MRI and dark field microscopy. ACS Nano. 7(7): 5842-5849.

10. Smolensky, E.D., Peterson, K.L., Weitz, E.A., Lewandowski, C., & Pierre, V.C. 2013. Magnetoluminescent light switches - dual modality in DNA detection. J. Am. Chem. Soc. 135(24): 8966-8972.

Dr. Valente's Publications

1. Jarjour NN, Dalzell TS, Maurice NJ, Wanhainen KM, Peng C, O'Flanagan SD, DePauw TA, Block KE, Valente WJ, Ashby KM, Masopust D, Jameson SC. Collaboration between interleukin-7 and -15 enables adaptation of tissue-resident and circulating memory CD8+ T cells to cytokine deficiency. Immunity. 2025 Feb 21:S1074-7613(25)00076-7. doi: 10.1016/j.immuni.2025.02.009. Epub ahead of print. PMID: 40023156.

2. Jarjour NN, Dalzell TS, Maurice NJ, Wanhainen KM, Peng C, DePauw TA, Block KE, Valente WJ, Ashby KM, Masopust D, Jameson SC. Collaboration between IL-7 and IL-15 enables adaptation of tissue-resident and circulating memory CD8+ T cells. bioRxiv [Preprint]. 2024 Jun 3:2024.05.31.596695. doi: 10.1101/2024.05.31.596695. PMID: 38895229; PMCID: PMC11185530.

3. V. Voillet, T. Berger, K. McKenna, K. Paulson, W. Tan, K. Smythe, D. Hunter, W. Valente, S. Weaver, J. Campbell, T. Kim, D. Byrd, J. Bielas, R. Pierce, A. Chapuis, R. Gottardo, A. Rongvaux.  2022. An In Vivo Model of Human Macrophages in Metastatic Melanoma. J. Immunology. 209 (3): 606-620.  

4. K. Paulson, V. Voillet, M. McAfee, D. Hunter, F. Wagener, M. Perdicchio, W. Valente, S. Koelle, C. Church, N. Vandeven, H. Thomas, A. Colunga, M. McAfee, J. Iyer, C. Yee, R. Kulikauskas, D. Koelle, R. Pierce, J. Bielas, P. Greenberg, S. Bhatia, R. Gottard. 2018. Acquired cancer resistance to combination immunotherapy from transcriptional loss of class I HLA. Nat. Commun. 9(3868). PMID: 30250229

5. G. Zheng, J. Terry, P. Belgrader, P. Ryvkin, Z. Bent, R. Wilson, S. Ziraldo, T. Wheeler, G. McDermott, J. Zhu, M. Gregory, J. Shuga, L. Montesclaros, J. Underwood, D. Masquelier, S. Nishimura, M. Schnall-Levin, P. Wyatt, C. Hindson, R. Bharadwaj, A. Wong, K. Ness, L.W. Beppu, H.J. Deeg, C. Farland, K.R. Loeb, W.J. Valente, N.G. Ericson, E.A. Stevens , J.P. Radich, T.S. Mikkelsen, B.J. Hindson, J.H. Bielas. 2017. Massively parallel digital transcriptional profiling of single cells. Nat. Commun. 8(14049). PMID: 28091601

6. J. Rose, J. Stephany, W. Valente, B. Trevillian, H. Dang, J. Bielas, D. Maly, D. Fowler. 2017. Rapidly inducible Cas9 and DSB-ddPCR to probe editing kinetics. Nat. Methods. 14(9): 891 - 896. PMID: 28737741

7. W. Valente, N. Ericson, A. Long, P. White, F. Marchetti, J. Bielas. 2016. Mitochondrial DNA exhibits resistance to induced point and deletion mutations. Nucleic Acids Res. 44(18): 8513 - 8524. PMID: 27550180.

8. W. Valente, E. Pienaar, A. Fast, A. Fluitt, S. Whitney, R. Fenton, R. Barletta, O. Chacon, H. Viljoen. 2009. A Kinetic Study of In Vitro Lysis of Mycobacterium smegmatis. Chem. Eng. Sci. 64(9):1955-1952. PMID: 21451732

9. W.J. Valente and J.H. Bielas. (2016). Mitochondrial Mutagenesis in Cancer. In D.M. Hockenbery (Ed.), Mitochondria and Cancer (pp. 131-148). New York: Humana Press.

Dr. Velez Reyes' Publications

1. Bhunia MM, Stehn CM, Jubenville TA, Novacek EL, Larsson AT, Madala M, Suppiah S, Velez-Reyes GL, Williams KB, Sokolowski M, Williams RL, Finnerty SJ, Temiz NA, Caride A, Bhagwate AV, Nagaraj NK, Lee JH, Ordog T, Zadeh G, Largaespada DA. Multiomic analyses reveal new targets of polycomb repressor complex 2 in Schwann lineage cells and malignant peripheral nerve sheath tumors. Neurooncol Adv. 2024 Nov 9;6(1):vdae188. doi: 10.1093/noajnl/vdae188. PMID: 39620202; PMCID: PMC11606644.

2. S. Suppiah, S. Mansouri, Y. Mamatjan, J.C. Liu, M.M. Bhunia, V. Patil, P. Rath, B. Mehani, P. Heir, S. Bunda, G.L. Vélez-Reyes, O. Singh, N. Ijad, N. Pirouzmand, T. Dalcourt, Y. Meng, S. Karimi, Q. Wei, F. Nassir, T.J. Pugh, G.D. Bader, K.D. Aldape, D.A. Largaespada, G. Zadeh. 2023. Multiplatform molecular profiling uncovers two subgroups of malignant peripheral nerve sheath tumors with distinct therapeutic vulnerabilities. Nat. Commun. 10;14(1):2696.

3. G.L. Vélez-Reyes, N. Koes, G. Kaufmann, J.H. Ryu, M. Berner, S. Rathe, D.A. Largaespada. 2021. Transposon Mutagenesis and CRISPR/Cas9 Screening Reveal Pathways Driving Peripheral Nerve Sheath Tumor Development and Maintenance. Cancers; 13(7): 1584.

4. C.B. Conboy*, G.L. Vélez-Reyes*, B.R. Tschida, H. Hu, M. Burns, G. Kaufmann, N. Koes, B. Keller, C. Alsinet, J. Abrahante, S.K. Rathe, N.A. Temiz, M. Linden, K. Ahmed, T.  Kuka, V.W. Keng , R. Harris, J. Llovet, T.K. Starr, D.A. Largaespada. 2019. RSPO2 Drives Hepatocellular Carcinoma Development in a YAP-dependent Manner. Hepatol. Commun.; 3(11): 1496-1509.

5. C.B. Conboy, G.L. Vélez-Reyes, M. Burns, C. Alsinet, J. Abrahante, S.K. Rathe, N.A. Temiz, M. Linden, K. Ahmed, T. Kuka, V.W. Keng, R. Harris, S. Llovet, T.K. Starr, D.A. Largaespada. 2019. R-Spondins 2 and 3 Are Overexpressed in a Subset of Human Colon and Breast Cancers. DNA Cell Biol.; 3(11): 1496-1509.

6. B. Rivera-Peña, F.J. Ruíz-Fullana, G.L. Vélez-Reyes, R.J. Rodriguez-Benitez, M.J. Marcos-Martinez, J. Trinidad-Pinedo, A. Báez. 2016. HPV-16 Infection Modifies Overall Survival of Puerto Rican HNSCC Patients. Infect. Agent Cancer; 11(47): 1-9.

7. H. Danahay, A.D. Torres, J. Coote, B.E. Montgomery, D. Xia, A. Wilson, H. Yang, Z. Wang, L. Bevan, C. Thomas, S. Petit, A. London, P. LeMotte, A. Doelemeyer, G.L. Vélez-Reyes, P.  Bernasconi, C.J. Fryer, M. Edwards, P. Capodieci, A. Chen, M. Hild, A.B. Jaffe. 2015. Notch2 is required for inflammatory cytokine-driven goblet cell metaplasia in the lung. Cell Rep., 12(10(2)): 239-52.

Dr. Arntson's Publications

1. To be posted soon!

Dr. Baughan's Publications

1. McCarthy-Leo C, Baughan S, Dlugas H, Abraham P, Gibbons J, Baldwin C, Chung S, Feldman GL, Dyson G, Finley RL Jr, Tainsky MA. Germline variant profiling of CHEK2 sequencing variants in breast cancer patients. Cancer Genet. 2024 Aug 23;288-289:10-19. doi: 10.1016/j.cancergen.2024.08.081. Epub ahead of print. PMID: 39208550.

2. Baughan SL, Darwiche F, Tainsky MA. Functional analysis of ATM variants in a high risk cohort provides insight into missing heritability. Cancer Genet. 2022 Jun;264-265:40-49. doi: 10.1016/j.cancergen.2022.03.003. Epub 2022 Mar 20. PMID: 35354106.

3. Greenwell AM, Baughan S, Altinok D, Marupudi NI, Kupsky W, Kumar-Sinha C, Gorsi HS. Lorlatinib for the Treatment of ALK Fusion-Positive Infant-Type Hemispheric Glioma: A Case Report. JCO Precis Oncol. 2022 Oct;6:e2200255. doi: 10.1200/PO.22.00255. PMID: 36315913.

4. Baughan S, Tainsky MA. K3326X and Other C-Terminal BRCA2 Variants Implicated in Hereditary Cancer Syndromes: A Review. Cancers (Basel). 2021 Jan 25;13(3):447. doi: 10.3390/cancers13030447. PMID: 33503928; PMCID: PMC7865497.

5. Venuprasad K, Zeng M, Baughan SL, Massoumi R. Multifaceted role of the ubiquitin ligase Itch in immune regulation. Immunol Cell Biol. 2015 May-Jun;93(5):452-60. doi: 10.1038/icb.2014.118. Epub 2015 Jan 13. PMID: 25582340.

Dr. Lee's Publications

1. David NA, Lee RD, LaRue RS, Joo S, Farrar MA. Nuclear corepressors NCOR1 and NCOR2 entrain thymocyte signaling, selection, and emigration. bioRxiv [Preprint]. 2023 Sep 29:2023.09.27.559810. doi: 10.1101/2023.09.27.559810. PMID: 37808728; PMCID: PMC10557688.

2. Lee RD, Knutson TP, Munro SA, Miller JT, Heltemes-Harris LM, Mullighan CG, Jepsen K, Farrar MA. Nuclear corepressors NCOR1/NCOR2 regulate B cell development, maintain genomic integrity and prevent transformation. Nat Immunol. 2022 Dec;23(12):1763-1776. doi: 10.1038/s41590-022-01343-7. Epub 2022 Oct 31. PMID: 36316474; PMCID: PMC9772092.

3. Lee RD, Munro SA, Knutson TP, LaRue RS, Heltemes-Harris LM, Farrar MA. Single-cell analysis identifies dynamic gene expression networks that govern B cell development and transformation. Nat Commun. 2021 Nov 25;12(1):6843. doi: 10.1038/s41467-021-27232-5. PMID: 34824268; PMCID: PMC8617197.

4. Lee RD, Song MY, Lee JK. Large-scale profiling and identification of potential regulatory mechanisms for allelic gene expression in colorectal cancer cells. Gene. 2013 Jan 1;512(1):16-22. doi: 10.1016/j.gene.2012.10.001. Epub 2012 Oct 10. PMID: 23064046.

Dr. Parappilly's Publications

1. To be posted soon!

Dr. Smart's Publications

1. ubati T, Kim K, Yang Z, Murphy MB, Van Amburg JC, Christopher IL, Dougherty OP, Woodall KK, Smart CD, Johnson JE, Fogo AB, Amarnath V, Agrawal V, Barnett JV, Saffitz JE, Murray KT. Oxidative Stress Causes Mitochondrial and Electrophysiologic Dysfunction to Promote Atrial Fibrillation in Pitx2+/-Mice. Circ Arrhythm Electrophysiol. 2025 Feb 24:e013199. doi: 10.1161/CIRCEP.124.013199. Epub ahead of print. PMID: 39989351.

2. Murphy MB, Yang Z, Subati T, Farber-Eger E, Kim K, Blackwell DJ, Fleming MR, Stark JM, Van Amburg JC, Woodall KK, Van Beusecum JP, Agrawal V, Smart CD, Pitzer A, Atkinson JB, Fogo AB, Bastarache JA, Kirabo A, Wells QS, Madhur MS, Barnett JV, Murray KT. LNK/SH2B3 loss of function increases susceptibility to murine and human atrial fibrillation. Cardiovasc Res. 2024 Jul 2;120(8):899-913. doi: 10.1093/cvr/cvae036. PMID: 38377486; PMCID: PMC11218690.

3. Smart CD, Fehrenbach DJ, Wassenaar JW, Agrawal V, Fortune NL, Dixon DD, Cottam MA, Hasty AH, Hemnes AR, Doran AC, Gupta DK, Madhur MS. Immune profiling of murine cardiac leukocytes identifies triggering receptor expressed on myeloid cells 2 as a novel mediator of hypertensive heart failure. Cardiovasc Res. 2023 Oct 24;119(13):2312-2328. doi: 10.1093/cvr/cvad093. PMID: 37314125; PMCID: PMC10597637.

4. Smart CD, Madhur MS. The immunology of heart failure with preserved ejection fraction. Clin Sci (Lond). 2023 Aug 31;137(16):1225-1247. doi: 10.1042/CS20230226. PMID: 37606086; PMCID: PMC10959189.

5. Alexander MR, Dale BL, Smart CD, Elijovich F, Wogsland CE, Lima SM, Irish JM, Madhur MS. Immune Profiling Reveals Decreases in Circulating Regulatory and Exhausted T Cells in Human Hypertension. JACC Basic Transl Sci. 2023 Jan 4;8(3):319-336. doi: 10.1016/j.jacbts.2022.09.007. PMID: 37034287; PMCID: PMC10077123.

6. Alexander MR, Hank S, Dale BL, Himmel L, Zhong X, Smart CD, Fehrenbach DJ, Chen Y, Prabakaran N, Tirado B, Centrella M, Ao M, Du L, Shyr Y, Levy D, Madhur MS. A Single Nucleotide Polymorphism in SH2B3/LNK Promotes Hypertension Development and Renal Damage. Circ Res. 2022 Oct 14;131(9):731-747. doi: 10.1161/CIRCRESAHA.121.320625. Epub 2022 Sep 28. Erratum in: Circ Res. 2023 Mar 3;132(5):e95. doi: 10.1161/RES.0000000000000599. PMID: 36169218; PMCID: PMC9588739.

7. Patrick DM, de la Visitación N, Krishnan J, Chen W, Ormseth MJ, Stein CM, Davies SS, Amarnath V, Crofford LJ, Williams JM, Zhao S, Smart CD, Dikalov S, Dikalova A, Xiao L, Van Beusecum JP, Ao M, Fogo AB, Kirabo A, Harrison DG. Isolevuglandins disrupt PU.1-mediated C1q expression and promote autoimmunity and hypertension in systemic lupus erythematosus. JCI Insight. 2022 Jul 8;7(13):e136678. doi: 10.1172/jci.insight.136678. PMID: 35608913; PMCID: PMC9310530.

8. McNew KL, Abraham A, Sack DE, Smart CD, Pettway YD, Falk AC, Lister RL, Faucon AB, Bejan CA, Capra JA, Aronoff DM, Boyd KL, Moore DJ. Vascular alterations impede fragile tolerance to pregnancy in type 1 diabetes. F S Sci. 2022 May;3(2):148-158. doi: 10.1016/j.xfss.2022.02.001. Epub 2022 Feb 5. PMID: 35560012; PMCID: PMC9850286.

9. Van Beusecum JP, Barbaro NR, Smart CD, Patrick DM, Loperena R, Zhao S, de la Visitacion N, Ao M, Xiao L, Shibao CA, Harrison DG. Growth Arrest Specific-6 and Axl Coordinate Inflammation and Hypertension. Circ Res. 2021 Nov 12;129(11):975-991. doi: 10.1161/CIRCRESAHA.121.319643. Epub 2021 Sep 27. PMID: 34565181; PMCID: PMC9125747.

10. Li Q, Li C, Elnwasany A, Sharma G, An YA, Zhang G, Elhelaly WM, Lin J, Gong Y, Chen G, Wang M, Zhao S, Dai C, Smart CD, Liu J, Luo X, Deng Y, Tan L, Lv SJ, Davidson SM, Locasale JW, Lorenzi PL, Malloy CR, Gillette TG, Vander Heiden MG, Scherer PE, Szweda LI, Fu G, Wang ZV. PKM1 Exerts Critical Roles in Cardiac Remodeling Under Pressure Overload in the Heart. Circulation. 2021 Aug 31;144(9):712-727. doi: 10.1161/CIRCULATIONAHA.121.054885. Epub 2021 Jun 9. PMID: 34102853; PMCID: PMC8405569.

11. Madhur MS, Elijovich F, Alexander MR, Pitzer A, Ishimwe J, Van Beusecum JP, Patrick DM, Smart CD, Kleyman TR, Kingery J, Peck RN, Laffer CL, Kirabo A. Hypertension: Do Inflammation and Immunity Hold the Key to Solving this Epidemic? Circ Res. 2021 Apr 2;128(7):908-933. doi: 10.1161/CIRCRESAHA.121.318052. Epub 2021 Apr 1. PMID: 33793336; PMCID: PMC8023750.

12. Chen Y, Dale BL, Alexander MR, Xiao L, Ao M, Pandey AK, Smart CD, Davis GK, Madhur MS. Class switching and high-affinity immunoglobulin G production by B cells is dispensable for the development of hypertension in mice. Cardiovasc Res. 2021 Mar 21;117(4):1217-1228. doi: 10.1093/cvr/cvaa187. PMID: 32609312; PMCID: PMC7983008.

13. Alexander MR, Schoeder CT, Brown JA, Smart CD, Moth C, Wikswo JP, Capra JA, Meiler J, Chen W, Madhur MS. Predicting susceptibility to SARS-CoV-2 infection based on structural differences in ACE2 across species. FASEB J. 2020 Dec;34(12):15946-15960. doi: 10.1096/fj.202001808R. Epub 2020 Oct 4. PMID: 33015868; PMCID: PMC7675292.

14. Dale BL, Pandey AK, Chen Y, Smart CD, Laroumanie F, Ao M, Xiao L, Dikalova AE, Dikalov SI, Elijovich F, Foss JD, Barbaro NR, Van Beusecum JP, Deger SM, Alsouqi A, Itani HA, Norlander AE, Alexander MR, Zhao S, Ikizler TA, Algood HMS, Madhur MS. Critical role of Interleukin 21 and T follicular helper cells in hypertension and vascular dysfunction. JCI Insight. 2019 Apr 23;5(11):e129278. doi: 10.1172/jci.insight.129278. PMID: 31013256; PMCID: PMC6629096.

15. Smart CD, Madhur MS. Recent Cardiovascular Research highlights from the Americas. Cardiovasc Res. 2019 Feb 1;115(2):e22-e23. doi: 10.1093/cvr/cvy229. PMID: 30668677; PMCID: PMC6736084.