Thomas Caulfield

2024

In Silico Investigation of Parkin-Activating Mutations Using Simulations and Network Modeling

Islam, N. N., Weber, C. A., Coban, M., Cocker, L. T., Fiesel, F. C., Springer, W. & Caulfield, T. R., Mar 2024, In: Biomolecules. 14, 3, 365.

Research output: Contribution to journal › Article › peer-review

Open Access

2023

AT-101 Enhances the Antitumor Activity of Lenalidomide in Patients with Multiple Myeloma

Ailawadhi, S., Parrondo, R. D., Dutta, N., Han, B., Ciccio, G., Cherukuri, Y., Alegria, V. R., LaPlant, B. R., Roy, V., Sher, T., Edwards, B., Lanier, S., Manna, A., Heslop, K., Caulfield, T., Maldosevic, E., Storz, P., Manochakian, R., Asmann, Y., Chanan-Khan, A. A., & 1 othersPaulus, A., Jan 2023, In: Cancers. 15, 2, 477.

Research output: Contribution to journal › Article › peer-review

Open Access

Mycolactone: A Broad Spectrum Multitarget Antiviral Active in the Picomolar Range for COVID-19 Prevention and Cure

Asiedu, S. O., Gupta, Y., Nicolaescu, V., Gula, H., Caulfield, T. R., Durvasula, R., Kempaiah, P., Kwofie, S. K. & Wilson, M. D., Apr 2023, In: International journal of molecular sciences. 24, 8, 7151.

Research output: Contribution to journal › Article › peer-review

Open Access

Phenotypic screening models for rapid diagnosis of genetic variants and discovery of personalized therapeutics

Hopkins, C. E., Brock, T., Caulfield, T. R. & Bainbridge, M., Jun 2023, In: Molecular Aspects of Medicine. 91, 101153.

Research output: Contribution to journal › Review article › peer-review

Open Access

Protein structure-based in-silico approaches to drug discovery: Guide to COVID-19 therapeutics

Gupta, Y., Savytskyi, O. V., Coban, M., Venugopal, A., Pleqi, V., Weber, C. A., Chitale, R., Durvasula, R., Hopkins, C., Kempaiah, P. & Caulfield, T. R., Jun 2023, In: Molecular Aspects of Medicine. 91, 101151.

Research output: Contribution to journal › Review article › peer-review

Open Access

Statistical Mechanics Metrics in Pairing and Parsing In Silico and Phenotypic Data of a Novel Genetic NFκB1 (c.T638A) Variant

Chaudhri, E. N., Abbott, J. M., Islam, N. N., Weber, C. A., Coban, M. A., Bilgili, A., Squire, J. D., Mantia, S., Wierenga, K. J. & Caulfield, T. R., Oct 2023, In: Genes. 14, 10, 1855.

Research output: Contribution to journal › Article › peer-review

Open Access

Substitution of PINK1 Gly411 modulates substrate receptivity and turnover

Fiesel, F. C., Fričová, D., Hayes, C. S., Coban, M. A., Hudec, R., Bredenberg, J. M., Broadway, B. J., Markham, B. N., Yan, T., Boneski, P. K., Fiorino, G., Watzlawik, J. O., Hou, X., McCarty, A. M., Lewis-Tuffin, L. J., Zhong, J., Madden, B. J., Ordureau, A., An, H., Puschmann, A., & 5 othersWszolek, Z. K., Ross, O. A., Harper, J. W., Caulfield, T. R. & Springer, W., 2023, In: Autophagy. 19, 6, p. 1711-1732 22 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Unveiling an indole alkaloid diketopiperazine biosynthetic pathway that features a unique stereoisomerase and multifunctional methyltransferase

Deletti, G., Green, S. D., Weber, C., Patterson, K. N., Joshi, S. S., Khopade, T. M., Coban, M., Veek-Wilson, J., Caulfield, T. R., Viswanathan, R. & Lane, A. L., Dec 2023, In: Nature communications. 14, 1, 2558.

Research output: Contribution to journal › Article › peer-review

Open Access

Utilizing genetic code expansion to modify N-TIMP2 specificity towards MMP-2, MMP-9, and MMP-14

Hayun, H., Coban, M., Bhagat, A. K., Ozer, E., Alfonta, L., Caulfield, T. R., Radisky, E. S. & Papo, N., Dec 2023, In: Scientific reports. 13, 1, 5186.

Research output: Contribution to journal › Article › peer-review

Open Access

2022

Molecular Modeling and Phenotypic Description of a Patient with a Novel Exonic Deletion of GALNS with Resultant Morquio Syndrome with Two Successful Pregnancies

Selvam, P., Jain, A., Abbott, J., Ahuja, A. S., Cheema, A., Bruno, K. A., Atwal, H., Forghani, I., Caulfield, T. & Atwal, P. S., Jul 1 2022, In: Molecular Syndromology. 13, 4, p. 282-289 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Repurposing Lansoprazole and Posaconazole to treat leishmaniasis: Integration of in vitro testing, pharmacological corroboration, and mechanisms of action

Gupta, Y., Goicoechea, S., Romero, J. G., Mathur, R., Caulfield, T. R., Becker, D. P., Durvasula, R. & Kempaiah, P., 2022, In: Journal of Food and Drug Analysis. 30, 1, p. 128-149 22 p., 11.

Research output: Contribution to journal › Article › peer-review

Open Access

2021

A novel, germline, deactivating CBL variant p.L493F alters domain orientation and is associated with multiple childhood cancers

Norris, G. A., Tsai, A. C. H., Schneider, K. W., Wu, Y. H., Caulfield, T. & Green, A. L., Jun 2021, In: Cancer Genetics. 254-255, p. 18-24 7 p.

Research output: Contribution to journal › Article › peer-review

APOE3-Jacksonville (V236E) variant reduces self-aggregation and risk of dementia

Liu, C. C., Murray, M. E., Li, X., Zhao, N., Wang, N., Heckman, M. G., Shue, F., Martens, Y., Li, Y., Raulin, A. C., Rosenberg, C. L., Doss, S. V., Zhao, J., Wren, M. C., Jia, L., Ren, Y., Ikezu, T. C., Lu, W., Fu, Y., Caulfield, T., & 27 othersTrottier, Z. A., Knight, J., Chen, Y., Linares, C., Wang, X., Kurti, A., Asmann, Y. W., Wszolek, Z. K., Smith, G. E., Vemuri, P., Kantarci, K., Knopman, D. S., Lowe, V. J., Jack, C. R., Parisi, J. E., Ferman, T. J., Boeve, B. F., Graff-Radford, N. R., Petersen, R. C., Younkin, S. G., Fryer, J. D., Wang, H., Han, X., Frieden, C., Dickson, D. W., Ross, O. A. & Bu, G., Sep 29 2021, In: Science translational medicine. 13, 613, eabc9375.

Research output: Contribution to journal › Article › peer-review

Open Access

Attacking covid-19 progression using multi-drug therapy for synergetic target engagement

Coban, M. A., Morrison, J., Maharjan, S., Medina, D. H. H., Li, W., Zhang, Y. S., Freeman, W. D., Radisky, E. S., Le Roch, K. G., Weisend, C. M., Ebihara, H. & Caulfield, T. R., Jun 2021, In: Biomolecules. 11, 6, 787.

Research output: Contribution to journal › Article › peer-review

Open Access

Clinical description & molecular modeling of novel MAX pathogenic variant causing pheochromocytoma in family, supports paternal parent-of-origin effect

Richter, J. E., Hines, S., Selvam, P., Atwal, H., Farres, H., Caulfield, T. R. & Atwal, P. S., Apr 2021, In: Cancer Genetics. 252-253, p. 107-110 4 p.

Research output: Contribution to journal › Article › peer-review

Endotheliitis, endothelin, and endothelin receptor blockers in COVID-19

Sanghavi, D. K., Titus, A., Caulfield, T. R. & David Freeman, W., May 2021, In: Medical Hypotheses. 150, 110564.

Research output: Contribution to journal › Article › peer-review

Open Access

Platforms for Personalized Polytherapeutics Discovery in COVID-19

Hopkins, C., Onweni, C., Zambito, V., Fairweather, D. L., McCormick, K., Ebihara, H., Caulfield, T., Zhang, Y. S. & Freeman, W. D., May 14 2021, In: Journal of Molecular Biology. 433, 10, 166945.

Research output: Contribution to journal › Review article › peer-review

Open Access

Role of plexind1/tgfβ signaling axis in pancreatic ductal adenocarcinoma progression correlates with the mutational status of kras

Vivekanandhan, S., Madamsetty, V. S., Angom, R. S., Dutta, S. K., Wang, E., Caulfield, T., Pletnev, A. A., Upstill-Goddard, R., Asmann, Y. W., Chang, D., Spaller, M. R. & Mukhopadhyay, D., Aug 2 2021, In: Cancers. 13, 16, 4048.

Research output: Contribution to journal › Article › peer-review

Open Access

Structural and computational perspectives of selectively targeting mutant proteins

Coban, M. A., Fraga, S. & Caulfield, T. R., 2021, In: Current Drug Discovery Technologies. 18, 3, p. 365-378 14 p.

Research output: Contribution to journal › Article › peer-review

Three-tier stratification for CNS COVID-19 to help decide which patients should undergo lumbar puncture with CSF analysis: a case report and literature review

Ramakrishna, J. M., Libertin, C. R., Siegel, J., Binnicker, M. J., Harris, D., Matcha, G. V., Caulfield, T. & Freeman, W. D., Mar 1 2021, In: Romanian Journal of Internal Medicine. 59, 1, p. 88-92 5 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

2020

ACEI/ARB therapy in COVID-19: The double-edged sword of ACE2 and SARS-CoV-2 viral docking

Onweni, C. L., Zhang, Y. S., Caulfield, T., Hopkins, C. E., Fairweather, D. L. & Freeman, W. D., Jul 31 2020, In: Critical Care. 24, 1, 475.

Research output: Contribution to journal › Letter › peer-review

Open Access

9 Scopus citations

An activating germline IDH1 variant associated with a tumor entity characterized by unilateral and bilateral chondrosarcoma of the mastoid

Blackburn, P. R., Carter, J. M., Oglesbee, D., Westendorf, J. J., Neff, B. A., Stichel, D., Tsen, D. W., Gavrilova, R. H., Wesseling, P., von Deimling, A., Caulfield, T. R., Klee, E. W., Pusch, S. & Inwards, C. Y., Oct 22 2020, In: Human Genetics and Genomics Advances. 1, 1, 100006.

Research output: Contribution to journal › Article › peer-review

Open Access

A virtual screening platform identifies chloroethylagelastatin a as a potential ribosomal inhibitor

Caulfield, T. R., Hayes, K. E., Qiu, Y., Coban, M., Oh, J. S., Lane, A. L., Yoshimitsu, T., Hazlehurst, L., Copland, J. A. & Tun, H. W., Oct 2020, In: Biomolecules. 10, 10, p. 1-19 19 p., 1407.

Research output: Contribution to journal › Article › peer-review

Open Access

Examination of Molecular Effects of MYLK Deletion in a Patient with Extensive Aortic, Carotid, and Abdominal Dissections That Underlie the Genetic Dysfunction

MacKlin, S. K., Bruno, K. A., Vadlamudi, C., Helmi, H., Samreen, A., Mohammad, A. N., Hines, S., Atwal, P. S. & Caulfield, T. R., 2020, In: Case Reports in Medicine. 2020, 5108052.

Research output: Contribution to journal › Article › peer-review

Open Access

FAM111A protects replication forks from protein obstacles via its trypsin-like domain

Kojima, Y., Machida, Y., Palani, S., Caulfield, T. R., Radisky, E. S., Kaufmann, S. H. & Machida, Y. J., Dec 1 2020, In: Nature communications. 11, 1, 1318.

Research output: Contribution to journal › Article › peer-review

Open Access

13 Scopus citations

Functional analysis of the SIM1 variant p.G715V in 2 patients with obesity

Blackburn, P. R., Sullivan, A. E., Gerassimou, A. G., Kleinendorst, L., Bersten, D. C., Cooiman, M., Harris, K. G., Wierenga, K. J., Klee, E. W., van Gerpen, J. A., Ross, O. A., van Haelst, M. M., Whitelaw, M. L., Atwal, P. S. & Caulfield, T. R., Jan 1 2020, In: Journal of Clinical Endocrinology and Metabolism. 105, 1, p. 355-361 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

Genomics combined with a protein informatics platform to assess a novel pathogenic variant c.1024 A>G (p.K342E) in OPA1 in a patient with autosomal dominant optic atrophy

Ahuja, A. S., Selvam, P., Vadlamudi, C., Chopra, H., Richter, J. E., Macklin, S. K., Samreen, A., Helmi, H., Mohammaad, A. N., Hines, S., Davila, M. C., Atwal, P. S. & Caulfield, T. R., Dec 2020, In: Ophthalmic Genetics. 41, 6, p. 563-569 7 p.

Research output: Contribution to journal › Article › peer-review

Molecular inhibitor of QSOX1 suppresses tumor growth in vivo

Fifield, A. L., Hanavan, P. D., Faigel, D. O., Sergienko, E., Bobkov, A., Meurice, N., Petit, J. L., Polito, A., Caulfield, T. R., Castle, E. P., Copland, J. A., Mukhopadhyay, D., Pal, K., Dutta, S. K., Luo, H., Ho, T. H. & Lake, D. F., 2020, In: Molecular cancer therapeutics. 19, 1, p. 112-122 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

3 Scopus citations

Structural models for the dynamic effects of loss-of-function variants in the human sim1 protein transcriptional activation domain

Coban, M. A., Blackburn, P. R., Whitelaw, M. L., van Haelst, M. M., Atwal, P. S. & Caulfield, T. R., Sep 2020, In: Biomolecules. 10, 9, p. 1-17 17 p., 1314.

Research output: Contribution to journal › Article › peer-review

Open Access

2019

Apolipoprotein E and Alzheimer disease: pathobiology and targeting strategies

Yamazaki, Y., Zhao, N., Caulfield, T. R., Liu, C. C. & Bu, G., Sep 1 2019, In: Nature Reviews Neurology. 15, 9, p. 501-518 18 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

149 Scopus citations

Design and Evaluation of PEGylated Liposomal Formulation of a Novel Multikinase Inhibitor for Enhanced Chemosensitivity and Inhibition of Metastatic Pancreatic Ductal Adenocarcinoma

Madamsetty, V. S., Pal, K., Dutta, S. K., Wang, E., Thompson, J. R., Banerjee, R. K., Caulfield, T. R., Mody, K., Yen, Y., Mukhopadhyay, D. & Huang, H. S., Oct 16 2019, In: Bioconjugate Chemistry. 30, 10, p. 2703-2713 11 p.

Research output: Contribution to journal › Article › peer-review

7 Scopus citations

Development of multi-drug loaded PEGylated nanodiamonds to inhibit tumor growth and metastasis in genetically engineered mouse models of pancreatic cancer

Madamsetty, V. S., Pal, K., Keshavan, S., Caulfield, T. R., Dutta, S. K., Wang, E., Fadeel, B. & Mukhopadhyay, D., Dec 7 2019, In: Nanoscale. 11, 45, p. 22006-22018 13 p.

Research output: Contribution to journal › Article › peer-review

11 Scopus citations

Disulfide engineering of human Kunitz-type serine protease inhibitors enhances proteolytic stability and target affinity toward mesotrypsin

Cohen, I., Coban, M., Shahar, A., Sankaran, B., Hockla, A., Lacham, S., Caulfield, T. R., Radisky, E. S. & Papo, N., Mar 29 2019, In: Journal of Biological Chemistry. 294, 13, p. 5105-5120 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

Genomic observations of a rare/pathogenic SMAD3 variant in Loeys–Dietz syndrome 3 confirmed by protein informatics and structural investigations

Richter, J. E., Samreen, A., Vadlamudi, C., Helmi, H., Mohammad, A. N., Wierenga, K., Hines, S., Atwal, P. S. & Caulfield, T. R., May 2019, In: Medicina (Lithuania). 55, 5, 137.

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

Integrative data fusion for comprehensive assessment of a novel CHEK2 variant using combined genomics, imaging, and functional-structural assessments via protein informatics

Hines, S. L., Mohammad, A. N., Jackson, J., Macklin, S. & Caulfield, T. R., 2019, In: Molecular Omics. 15, 1, p. 59-66 8 p.

Research output: Contribution to journal › Article › peer-review

4 Scopus citations

Molecular dynamics simulations suggest a non-doublet decoding model of –1 frameshifting by tRNA^ser3

Caulfield, T., Coban, M., Tek, A. & Flores, S. C., Nov 2019, In: Biomolecules. 9, 11, 745.

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

Protein informatics combined with multiple data sources enriches the clinical characterization of novel TRPV4 variant causing an intermediate skeletal dysplasia

Hines, S. L., Richter, J. E., Mohammad, A. N., Mahim, J., Atwal, P. S. & Caulfield, T. R., Mar 2019, In: Molecular Genetics and Genomic Medicine. 7, 3, e566.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

2018

Accelerated bottom-up drug design platform enables the discovery of novel stearoyl-CoA desaturase 1 inhibitors for cancer therapy

von Roemeling, C. A., Caulfield, T. R., Marlow, L., Bok, I., Wen, J., Miller, J. L., Hughes, R., Hazlehurst, L., Pinkerton, A. B., Radisky, D. C., Tun, H. W., Kim, Y. S. B., Lane, A. L. & Copland, J. A., 2018, In: Oncotarget. 9, 1, p. 3-20 18 p.

Research output: Contribution to journal › Article › peer-review

Open Access

13 Scopus citations

Molecular Dissection of FUS Points at Synergistic Effect of Low-Complexity Domains in Toxicity

Bogaert, E., Boeynaems, S., Kato, M., Guo, L., Caulfield, T. R., Steyaert, J., Scheveneels, W., Wilmans, N., Haeck, W., Hersmus, N., Schymkowitz, J., Rousseau, F., Shorter, J., Callaerts, P., Robberecht, W., Van Damme, P. & Van Den Bosch, L., Jul 17 2018, In: Cell reports. 24, 3, p. 529-537.e4

Research output: Contribution to journal › Article › peer-review

Open Access

32 Scopus citations

Personalized molecular modeling for pinpointing associations of protein dysfunction and variants associated with hereditary cancer syndromes

Macklin, S., Mohammed, A., Jackson, J., Hines, S. L., Atwal, P. S. & Caulfield, T., Sep 2018, In: Molecular Genetics and Genomic Medicine. 6, 5, p. 805-810 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2 Scopus citations

Protein modeling and clinical description of a novel in-frame GLB1 deletion causing GM1 gangliosidosis type II

Richter, J. E., Zimmermann, M. T., Blackburn, P. R., Mohammad, A. N., Klee, E. W., Pollard, L. M., Macmurdo, C. F., Atwal, P. S. & Caulfield, T. R., Nov 2018, In: Molecular Genetics and Genomic Medicine. 6, 6, p. 1229-1235 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

3 Scopus citations

Protein molecular modeling shows residue T599 is critical to wild-type function of POLG and description of a novel variant associated with the SANDO phenotype

Richter, J. E., Robles, H. G., Mauricio, E., Mohammad, A., Atwal, P. S. & Caulfield, T. R., Apr 5 2018, In: Human Genome Variation. 5, 18016.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

Protein molecular modeling techniques investigating novel TAB2 variant R347X causing cardiomyopathy and congenital heart defects in multigenerational family

Caulfield, T. R., Richter, J. E., Brown, E. E., Mohammad, A. N., Judge, D. P. & Atwal, P. S., Jul 2018, In: Molecular Genetics and Genomic Medicine. 6, 4, p. 666-672 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

6 Scopus citations

TRIO gene segregation in a family with cerebellar ataxia

Hanna Al Shaikh, R., Caulfield, T., Strongosky, A. J., Matthew, M., Jansen-West, K. R., Prudencio, M., Fryer, J. D., Petrucelli, L., Uitti, R. J. & Wszolek, Z. K., Nov 1 2018, In: Neurologia i neurochirurgia polska. 52, 6, p. 743-749 7 p.

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

2017

A novel splice site variant in CYP11A1 in trans with the p.E314K variant in a male patient with congenital adrenal insufficiency

Lara-Velazquez, M., Perdomo-Pantoja, A., Blackburn, P. R., Gass, J. M., Caulfield, T. R. & Atwal, P. S., Nov 2017, In: Molecular Genetics and Genomic Medicine. 5, 6, p. 781-787 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

7 Scopus citations

Heterozygous PINK1 p.G411S increases risk of Parkinson's disease via a dominant-negative mechanism

Puschmann, A., Fiesel, F. C., Caulfield, T. R., Hudec, R., Ando, M., Truban, D., Hou, X., Ogaki, K., Heckman, M. G., James, E. D., Swanberg, M., Jimenez-Ferrer, I., Hansson, O., Opala, G., Siuda, J., Boczarska-Jedynak, M., Friedman, A., Koziorowski, D., Rudzińska-Bar, M., Aasly, J. O., & 13 othersLynch, T., Mellick, G. D., Mohan, M., Silburn, P. A., Sanotsky, Y., Vilariño-Güell, C., Farrer, M. J., Chen, L., Dawson, V. L., Dawson, T. M., Wszolek, Z. K., Ross, O. A. & Springer, W., Jan 2017, In: Brain. 140, 1, p. 98-117 20 p.

Research output: Contribution to journal › Article › peer-review

Open Access

71 Scopus citations

Multifaceted peptide assisted one-pot synthesis of gold nanoparticles for plectin-1 targeted gemcitabine delivery in pancreatic cancer

Pal, K., Al-Suraih, F., Gonzalez-Rodriguez, R., Dutta, S. K., Wang, E., Kwak, H. S., Caulfield, T. R., Coffer, J. L. & Bhattacharya, S., Oct 28 2017, In: Nanoscale. 9, 40, p. 15622-15634 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

19 Scopus citations

PINK1, Parkin, and Mitochondrial Quality Control: What can we Learn about Parkinson's Disease Pathobiology?

Truban, D., Hou, X., Caulfield, T. R., Fiesel, F. C. & Springer, W., 2017, In: Journal of Parkinson's disease. 7, 1, p. 13-29 17 p.

Research output: Contribution to journal › Review article › peer-review

Open Access

101 Scopus citations

Reply: Heterozygous PINK1 p.G411S in rapid eye movement sleep behaviour disorder

Puschmann, A., Fiesel, F. C., Caulfield, T. R., Hudec, R., Ando, M., Truban, D., Hou, X., Ogaki, K., Heckman, M. G., James, E. D., Swanberg, M., Jimenez-Ferrer, I., Hansson, O., Opala, G., Siuda, J., Boczarska-Jedynak, M., Friedman, A., Koziorowski, D., Rudzińska-Bar, M., Aasly, J. O., & 13 othersLynch, T., Mellick, G. D., Mohan, M., Silburn, P. A., Sanotsky, Y., Vilarinõ-Güell, C., Farrer, M. J., Chen, L., Dawson, V. L., Dawson, T. M., Wszolek, Z. K., Ross, O. A. & Springer, W., Jun 2017, In: Brain. 140, 6, p. e33

Research output: Contribution to journal › Letter › peer-review

Open Access

1 Scopus citations

Small molecule inhibitors of mesotrypsin from a structurebased docking screen

Kayode, O., Huang, Z., Soares, A. S., Caulfield, T. R., Dong, Z., Bode, A. M. & Radisky, E. S., May 2017, In: PloS one. 12, 5, e0176694.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

Thomas Caulfield, PhD

Research output

Search results