Published in bioRxiv, 2025
Investigation of viral phosphodiesterases and their role in evading host immune signaling pathways.
Doherty EE*, Nomburg J*, Adler BA, Lopez S, Hsieh K, Price N, Blount N, Doudna JA (2025). "Divergent viral phosphodiesterases for immune signaling evasion" bioRxiv.
Published in Nature Microbiology, 2025
Functional genomics platform for bacteriophage research using innovative CRISPRi methodology.
Adler BA, Al-Shimary MJ, Patel JR, Armbruster EG, Colognori D, Charles EJ, Miller KV, Lahiri A, Cui ML, Oromí-Bosch A, Voelker A, Trinidad M, Lee J, Beurnier S, Boger R, Nomburg J, Barrangou R, Mutalik VK, Schoeniger JS, Pogliano JA, Savage DF, Doudna JA, Cress BF (2025). "CRISPRi-ART enables functional genomics of diverse bacteriophages using RNA-binding dCas13d" Nature Microbiology.
Published in Cell, 2024
Discovery of conserved immune evasion mechanisms across animal and bacterial viruses.
Hobbs SJ, Nomburg J, Doudna JA, Kranzusch PJ (2024). "Animal and bacterial viruses share conserved mechanisms of immune evasion" Cell.
Published in Nature, 2024
Investigation of protein fold evolution and functional diversification in viral genomes.
Nomburg J, Doherty EE, Price N, Bellieny-Rabelo D, Zhu YK, Doudna JA (2024). "Birth of protein folds and functions in the virome" Nature.
Published in International Journal of Cancer, 2022
International study examining bacterial microbiome associations with esophageal squamous cell carcinoma.
Nomburg J, Bullman S, Nasrollahzadeh D, Collisson EA, Abedi‐Ardekani B, Akoko LO, Atkins JR, Buckle GC, Gopal S, Hu N, Kaimila B, Khoshnia M, Malekzadeh R, Menya D, Mmbaga BT, Moody S, Mulima G, Mushi BP, Mwaiselage J, Mwanga A, Newton Y, Ng DL, Radenbaugh A, Rwakatema DS, Selekwa M, Schüz J, Taylor PR, Vaske C, Goldstein A, Stratton MR, McCormack V, Brennan P, DeCaprio JA, Meyerson M, Mmbaga EJ, Van Loon K (2022). "An international report on bacterial communities in esophageal squamous cell carcinoma" International Journal of Cancer.
Published in Journal of Clinical Investigation, 2022
Research on HLA class I expression restoration in Merkel cell carcinoma through viral and epigenetic mechanisms.
Lee PC, Klaeger S, Le PM, Korthauer K, Cheng J, Ananthapadmanabhan V, Frost TC, Stevens JD, Wong AY, Iorgulescu JB, Tarren AY, Chea VA, Carulli IP, Lemvigh CK, Pedersen CB, Gartin AK, Sarkizova S, Wright KT, Li LW, Nomburg J, Li S, Huang T, Liu X, Pomerance L, Doherty LM, Apffel AM, Wallace LJ, Rachimi S, Felt KD, Wolff JO, Witten E, Zhang W, Neuberg D, Lane WJ, Zhang G, Olsen LR, Thakuria M, Rodig SJ, Clauser KR, Starrett GJ, Doench JG, Buhrlage SJ, Carr SA, DeCaprio JA, Wu CJ, Keskin DB (2022). "Reversal of viral and epigenetic HLA class I repression in Merkel cell carcinoma" Journal of Clinical Investigation.
Published in PLoS Pathogens, 2022
Long-read sequencing analysis revealing complex transcriptional patterns in polyomavirus genomes.
Nomburg J, Zou W, Frost TC, Datta C, Vasudevan S, Starrett GJ, Imperiale MJ, Meyerson M, DeCaprio JA (2022). "Long-read sequencing reveals complex patterns of wraparound transcription in polyomaviruses" PLoS Pathogens.
Published in Infectious Agents and Cancer, 2021
Metagenomic investigation for novel infectious agents in systemic anaplastic large cell lymphoma.
Mahale P*, Nomburg J*, Song JY, Steinberg M, Starrett G, Boland J, Lynch CF, Chadburn A, Rubinstein PG, Hernandez BY, Weisenburger DD, Bullman S, Engels EA (2021). "Metagenomic analysis to identify novel infectious agents in systemic anaplastic large cell lymphoma" Infectious Agents and Cancer.
Published in Pediatric and Developmental Pathology, 2021
Comprehensive characterization of immune cell populations and microbial components in Kikuchi-Fujimoto disease.
Nelson ND, Meng W, Rosenfeld AM, Bullman S, Pedamallu CS, Nomburg JL, Wertheim GB, Paessler ME, Pinkus G, Hornick JL, Meyerson M, Luning Prak ET, Pillai V (2021). "Characterization of plasmacytoid dendritic cells microbial sequences and identification of a candidate public T-cell clone in Kikuchi-Fujimoto disease" Pediatric and Developmental Pathology.
Published in Genome Medicine, 2020
Discovery of widespread non-canonical subgenomic RNA generation in SARS-CoV-2 infection.
Nomburg J, Meyerson M, DeCaprio JA (2020). "Pervasive generation of non-canonical subgenomic RNAs by SARS-CoV-2" Genome Medicine.
Published in Nature, 2020
Identification of specific mutational signatures in colorectal cancer linked to genotoxic E. coli bacteria.
Pleguezuelos-Manzano C, Puschhof J, Rosendahl Huber A, van Hoeck A, Wood HM, Nomburg J, Gurjao C, Manders F, Dalmasso G, Stege PB, Paganelli FL, Geurts MH, Beumer J, Mizutani T, Miao Y, van der Linden R, van der Elst S, Garcia KC, Top J, Willems RJL, Giannakis M, Bonnet R, Quirke P, Meyerson M, Cuppen E, van Boxtel R, Clevers H (2020). "Mutational signature in colorectal cancer caused by genotoxic pks+ E. coli" Nature.
Published in Blood Advances, 2020
Comprehensive metagenomic characterization of blastic plasmacytoid dendritic cell neoplasm.
Nomburg J, Bullman S, Chung SS, Togami K, Walker MA, Griffin GK, Morgan EA, LeBoeuf NR, DeCaprio JA, Meyerson M, Lane AA (2020). "Comprehensive metagenomic analysis of blastic plasmacytoid dendritic cell neoplasm" Blood Advances.
Published in Genome Medicine, 2020
Comprehensive clinical and molecular analysis comparing virus-positive and virus-negative Merkel cell carcinoma.
Starrett GJ, Thakuria M, Chen T, Marcelus C, Cheng J, Nomburg J, Thorner AR, Slevin MK, Powers W, Burns RT, Perry C, Piris A, Kuo FC, Rabinowits G, Giobbie-Hurder A, MacConaill LE, DeCaprio JA (2020). "Clinical and molecular characterization of virus-positive and virus-negative Merkel cell carcinoma" Genome Medicine.
Published in Cell Metabolism, 2019
Investigation of how Epstein-Barr virus manipulates one-carbon metabolism to drive B cell transformation.
Wang LW, Shen H, Nobre L, Ersing I, Paulo JA, Trudeau S, Wang Z, Smith NA, Ma Y, Reinstadler B, Nomburg J, Sommermann T, Cahir-McFarland E, Gygi SP, Mootha VK, Weekes MP, Gewurz BE (2019). "Epstein-Barr-virus-induced one-carbon metabolism drives B cell transformation" Cell Metabolism.
Published in Journal of Virology, 2018
Research on WDR5 protein function in measles virus replication and cytoplasmic inclusion body formation.
Ma D, George CX, Nomburg JL, Pfaller CK, Cattaneo R, Samuel CE (2018). "Upon infection cellular WD repeat-containing protein 5 (WDR5) localizes to cytoplasmic inclusion bodies and enhances measles virus replication" Journal of Virology.
Published in Viruses, 2018
Review of CRISPR-Cas9 applications for studying virus-host interactions and viral pathogenesis.
Gebre M*, Nomburg JL*, Gewurz BE (2018). "CRISPR–Cas9 genetic analysis of virus–host interactions" Viruses.