| Authors | Publication Title | Journal | Year |
|---|---|---|---|
| Hultquist J, Cornish D, Jackson-Jones K, Ling-Hu T, Simons L, Cisneros W, Kuffour E, Agnes F, Lee Y, Bieniasz P, Lorenzo-Redondo R. | Disruption of CPSF6 enhances cellular permissivity to HIV-1 infection through alternative polyadenylation | Research Square PMID: 39678349 | 2024 |
| Becker ME , Martin-Sancho L, Simons LM, McRaven MD, Chanda SK, Hultquist JF, Hope TJ. | Live imaging of airway epithelium reveals that mucociliary clearance modulates SARS-CoV-2 spread | Nature Communications PMID: 39488529 | 2024 |
| Cisneros WJ, Soliman SHA, Walter M, Simons LM, Cornish D, De Fabritiis S, Halle AW, Kim EY, Wolinsky SM, Lorenzo-Redondo R, Shilatifard A, Hultquist JF. | Release of P-TEFb from the Super Elongation Complex promotes HIV-1 latency reversal | PLoS Pathogens PMID: 39259751 | 2024 |
| Class J, Simons LM, Lorenzo-Redondo R, Achi JG, Cooper L, Dangi T, Penaloza-MacMaster P, Ozer EA, Lutz SE, Rong L, Hultquist JF, Richner JM. | Evolution of SARS-CoV-2 in the murine central nervous system drives viral diversification | Nature Microbiology PMID: 39179693 | 2024 |
| Markov NS, Ren Z, Senkow KJ, Grant RA, Gao CA, Malsin ES, Sichizya L, Kihshen H, Helmin KA, Jovisic M, Arnold JM, Pérez-Leonor XG, Abdala-Valencia H, Swaminathan S, Nwaezeapu J, Kang M, Rasmussen L, Ozer EA, Lorenzo-Redondo R, Hultquist JF, Simons LM, Rios-Guzman E, Misharin AV, Wunderink RG, Budinger GRS, Singer BD, Morales-Nebreda L; NU SCRIPT Study Investigators. | Distinctive evolution of alveolar T cell responses is associated with clinical outcomes in unvaccinated patients with SARS-CoV-2 pneumonia | Nature Immunology PMID: 39138384 | 2024 |
| Quan J, Fan Q, Simons LM, Smukowski SN, Pegg C, Longnecker R, Savas JN, Hultquist JF, Smith GA. | Leveraging biotin-based proximity labeling to identify cellular factors governing early alphaherpesvirus infection | mBio PMID: 38953638 | 2024 |
| Yin X, Pu Y, Yuan S, Pache L, Churas C, Weston S, Riva L, Simons LM, Cisneros WJ, Clausen T, De Jesus PD, Kim HN, Fuentes D, Whitelock J, Esko J, Lord M, Mena I, García-Sastre A, Hultquist JF, Frieman MB, Ideker T, Pratt D, Martin-Sancho L, Chanda SK. | Global siRNA Screen Reveals Critical Human Host Factors of SARS-CoV-2 Multicycle Replication | bioRxiv PMID: 39026801 | 2024 |
| Law C, Wacleche VS, Cao Y, Pillai A, Sowerby J, Hancock B, Horisberger A, Bracero S, Skidanova V, Li Z, Adejoorin I, Dillon E, Benque IJ, Nunez DP, Simmons DP, Keegan J, Chen L, Baker T, Brohawn PZ, Al-Mossawi H, Hao LY, Jones B, Rao N, Qu Y, Alves SE; Accelerating Medicines Partnership: RA/SLE Network; Jonsson AH, Shaw KS, Vleugels RA, Massarotti E, Costenbader KH, Brenner MB, Lederer JA, Hultquist JF, Choi J, Rao DA. | Interferon subverts an AHR-JUN axis to promote CXCL13+ T cells in lupus | Nature PMID: 38987586 | 2024 |
| Mithal LB, Lancki N, Ling-Hu T, Goo YA, Otero S, Rhodes NJ, Cho BK, Grobman WA, Hultquist JF, Scholtens D, Mestan KG, Seed PC. | Evolution of the Umbilical Cord Blood Proteome Across Gestational Development | medRxiv PMID: 38947010 | 2024 |
| Rios-Guzman E, Stancovici AG, Simons LM, Barajas G, Glenn K, Weber RT, Ozer EA, Lorenzo-Redondo R, Hultquist JF, Bolon MK. | COVID-19 outbreak and genomic investigation in an inpatient behavioral health unit | Antimicrobial Stewardship & Healthcare Epidemiology PMID: 38698947 | 2024 |
| Rios-Guzman E, Simons LM, Dean TJ, Agnes F, Pawlowski A, Alisoltanidehkordi A, Nam HH, Ison MG, Ozer EA, Lorenzo-Redondo R, Hultquist JF. | Deviations in RSV epidemiological patterns and population structures in the United States following the COVID-19 pandemic | Nature Communications PMID: 38643200 | 2024 |
| Rathore U, Haas P, Easwar Kumar V, Hiatt J, Haas KM, Bouhaddou M, Swaney DL, Stevenson E, Zuliani-Alvarez L, McGregor MJ, Turner-Groth A, Ochieng' Olwal C, Bediako Y, Braberg H, Soucheray M, Ott M, Eckhardt M, Hultquist JF, Marson A, Kaake RM, Krogan NJ. | CRISPR-Cas9 screen of E3 ubiquitin ligases identifies TRAF2 and UHRF1 as regulators of HIV latency in primary human T cells | mBio PMID: 38411080 | 2024 |
| Inniss NL, Rzhetskaya M, Ling-Hu T, Lorenzo-Redondo R, Bachta KE, Satchell KJF, Hultquist JF. | Activity and inhibition of the SARS-CoV-2 Omicron nsp13 R392C variant using RNA duplex unwinding assays | SLAS Discovery PMID: 38301954 | 2024 |
| Stranford DM, Simons LM, Berman KE, Cheng L, DiBiase BN, Hung ME, Lucks JB, Hultquist JF, Leonard JN. | Genetically encoding multiple functionalities into extracellular vesicles for the targeted delivery of biologics to T cells | Nature Biomedical Engineering PMID: 38012307 | 2024 |
| Yi B, Tanaka YL, Cornish D, Kosako H, Butlertanaka EP, Sengupta P, Lippincott-Schwartz J, Hultquist JF, Saito A, Yoshimura SH. | Host ZCCHC3 blocks HIV-1 infection and production through a dual mechanism | iScience PMID: 38384847 | 2024 |
| Sow MS, Togo J, Simons LM, Diallo ST, Magassouba ML, Keita MB, Somboro AM, Coulibaly Y, Ozer EA, Hultquist JF, Murphy RL, Maiga AI, Maiga M, Lorenzo-Redondo R. | Genomic characterization of SARS-CoV-2 in Guinea, West Africa | PLoS One PMID: 38446806 | 2024 |
| Ling-Hu T, Simons LM , Dean TJ, Rios-Guzman E , Caputo MT, Alisoltani A, Qi C, Malczynski M, Blanke T, Jennings LJ, Ison MG, Achenbach CJ, Larkin PM, Kaul KL, Lorenzo-Redondo R, Ozer EA, Hultquist JF. | Integration of individualized and population-level molecular epidemiology data to model COVID-19 outcomes | Cell Reports Medicine PMID: 38232695 | 2024 |
| Phillips Ii G, Rodriguez-Ortiz AE, Adewumi OM, Banner K, Adetunji A, Awolude OA, Olayinka OA, Simons LM, Hultquist JF, Ozer EA, Kapogiannis B, Kuhns LM, Garofalo R, Taiwo B, Birkett M, Lorenzo-Redondo R. | Social/Sexual Networks of People Newly Diagnosed with HIV in Ibadan, Nigeria | AIDS Behavior PMID: 37812271 | 2024 |
| Lorenzo-Redondo R, de Sant'Anna Carvalho AM, Hultquist JF, Ozer EA. | SARS-CoV-2 genomics and impact on clinical care for COVID-19 | Journal of Antimicrobial Chemotherapy PMID: 37995357 | 2023 |
| Samer S, Thomas Y, Araínga M, Carter C, Shirreff LM, Arif MS, Avita JM, Frank I, McRaven MD, Thuruthiyil CT, Heybeli VB, Anderson MR, Owen B, Gaisin A, Bose D, Simons LM, Hultquist JF, Arthos J, Cicala C, Sereti I, Santangelo PJ, Lorenzo-Redondo R, Hope TJ, Villinger FJ, Martinelli E. | Blockade of TGF-β signaling reactivates HIV-1/SIV reservoirs and immune responses in vivo | JCI Insight PMID: 37991025 | 2023 |
| Behrens RT, Rajashekar JK, Bruce JW, Evans EL 3rd, Hansen AM, Salazar-Quiroz N, Simons LM, Ahlquist P, Hultquist JF , Kumar P, Sherer NM. | Exploiting a rodent cell block for intrinsic resistance to HIV-1 gene expression in human T cells | mBio PMID: 37676006 | 2023 |
| Alisoltani A, Simons LM, Agnes MFR, Heald-Sargent TA, Muller WJ, Kociolek LK, Hultquist JF, Lorenzo-Redondo R, Ozer EA. | Resurgence of SARS-CoV-2 Delta after Omicron variant superinfection in an immunocompromised pediatric patient | Virology Journal PMID: 37891657 | 2023 |
| Haas KM, McGregor MJ, Bouhaddou M, Polacco BJ, Kim EY, Nguyen TT, Newton BW, Urbanowski M, Kim H, Williams MAP, Rezelj VV, Hardy A, Fossati A, Stevenson EJ, Sukerman E, Kim T, Penugonda S, Moreno E, Braberg H, Zhou Y, Metreveli G, Harjai B, Tummino TA, Melnyk JE, Soucheray M, Batra J, Pache L, Martin-Sancho L, Carlson-Stevermer J, Jureka AS, Basler CF, Shokat KM, Shoichet BK, Shriver LP, Johnson JR, Shaw ML, Chanda SK, Roden DM, Carter TC, Kottyan LC, Chisholm RL, Pacheco JA, Smith ME, Schrodi SJ, Albrecht RA, Vignuzzi M, Zuliani-Alvarez L, Swaney DL, Eckhardt M, Wolinsky SM, White KM, Hultquist JF, Kaake RM, García-Sastre A, Krogan NJ. | Proteomic and genetic analyses of influenza A viruses identify pan-viral host targets | Nature Communications PMID: 37758692 | 2023 |
| Lane G, Zhou G, Hultquist JF, Simons LM, Redondo RL, Ozer EA, McCarthy DM, Ison MG, Achenbach CJ, Wang X, Wai CM, Wyatt E, Aalsburg A, Yang Q, Noto T, Alisoltani A, Ysselstein D, Awatramani R, Murphy R, Theron G, Zelano C. | Quantity of SARS-CoV-2 RNA copies exhaled per minute during natural breathing over the course of COVID-19 infection | medRxiv PMID: 37732212 | 2023 |
| McLaren P.J., Porreca I., Iaconis G., Mok H.P., Mukhopadhyay S., Karakoc E., Cristinelli S., Pomilla C., Bartha I., Thorball C.W., Tough R.H., Angelino P., Kiar C.S., Carstensen T., Fatumo S., Porter T., Jarvis I., Skarnes W.C., Bassett A., DeGorter M.K., Sathya Moorthy M.P., Tuff J.F., Kim E.Y., Walter M., Simons L.M. , Bashirova A., Buchbinder S., Carrington M., Cossarizza A., De Luca A., Goedert J.J., Goldstein D.B., Haas D.W., Herbeck J.T., Johnson E.O., Kaleebu P., Kilembe W., Kirk G.D., Kootstra N.A., Kral A.H., Lambotte O., Luo M., Mallal S., Martinez-Picado J., Meyer L., Miro J.M., Moodley P., Motala A.A., Mullins J.I., Nam K., Obel N., Pirie F., Plummer F.A., Poli G., Price M.A., Rauch A., Theodorou I., Trkola A., Walker B.D., Winkler C.A., Zagury J.F., Montgomery S.B., Ciuffi A., Hultquist J.F. , Wolinsky S.M., Dougan G., Lever A.M.L., Gurdasani D., Groom H., Sandhu M.S., Fellay J. | Africa-specific human genetic variation near CHD1L associates with HIV-1 load | Nature PMID: 37532928 | 2023 |
| Soliman S.H.A., Cisneros W.J., Iwanaszko M., Aoi Y., Ganesan S., Walter M., Zeidner J.M., Mishra R.K., Kim E.Y., Wolinsky S.M., Hultquist J.F., Shilatifard A. | Enhancing HIV-1 latency reversal through regulating the elongating RNA Pol II pause-release by a small-molecule disruptor of PAF1C. | Science Advances PMID: 36888719 | 2023 |
| Vandervaart J.P., Inniss N.L., Ling-Hu T., Minasov G., Wiersum G., Rosas-Lemus M., Shuvalova L., Achenbach C.J., Hultquist J.F., Satchell K.J.F., Bachta K.E.R. | Serodominant SARS-CoV-2 Nucleocapsid Peptides Map to Unstructured Protein Regions. | Microbiology Spectrum PMID: 37191546 | 2023 |
| Vaidyanathan A., Taylor H.E., Hope T.J., D'Aquila R.T., Bartom E.T., Hultquist J.F., Peter M.E. | Analysis of the Contribution of 6-mer Seed Toxicity to HIV-1-Induced Cytopathicity | Journal of Virology PMID: 37310263 | 2023 |
| Fink E.A., Bardine C., Gahbauer S., Singh I., Detomasi T.C., White K., Gu S., Wan X., Chen J., Ary B., Glenn I., O'Connell J., O'Donnell H., Fajtová P., Lyu J., Vigneron S., Young N.J., Kondratov I.S., Alisoltani A., Simons L.M., Lorenzo-Redondo R., Ozer E.A., Hultquist J.F., O'Donoghue A.J., Moroz Y.S., Taunton J., Renslo A.R., Irwin J.J., García-Sastre A., Shoichet B.K., Craik C.S. | Large library docking for novel SARS-CoV-2 main protease non-covalent and covalent inhibitors | Protein Science PMID: 37354015 | 2023 |
| Ozer E.A., Simons L.M., Adewumi O.M., Fowotade A.A., Omoruyi E.C., Adeniji J.A., Dean T.J., Zayas J, Bhimalli P.P., Ash M.K., Godzik A, Schneider J.R., Mamede J.I., Taiwo B.O., Hultquist J.F., Lorenzo-Redondo R | Multiple expansions of globally uncommon SARS-CoV-2 lineages in Nigeria | Nature Communications PMID: 35115515 | 2022 |
| Malikov V., Meade Nathan., Simons L.M. , Hultquist J.F., Naghavi, M.H. | FEZ1 phosphorylation regulates HSPA8 localization and interferon-stimulated gene expression | Cell Reports PMID: 35172151 | 2022 |
| Hiatt J., Hultquist J.F., McGregor M.J., Bouhaddou M., Leenay R.T., Simons L.M., Young J.M., Haas P., Roth T.L., Tobin V., Wojcechowskyj J.A., Woo J.M., Rathore U., Cavero D.A., Shifrut E., Nguyen T.T., Haas K.M., Malik H.S., Doudna J.A., May A.P., Marson A., Krogan N.J. | A functional map of HIV-host interactions in primary human T cells. | Nature Communications PMID: 35365639 | 2022 |
| Yoh S.M., Mamede J.I., Lau D., Ahn N., Sánchez-Aparicio M.T., Temple J., Tuckwell A., Fuchs N.V., Cianci G.C., Riva L., Curry H., Yin X., Gambut S., Simons L.M., Hultquist J.F., König R., Xiong Y., García-Sastre A., Böcking T., Hope T.J., Chanda S.K. | Recognition of HIV-1 capsid by PQBP1 licenses an innate immune sensing of nascent HIV-1 DNA. | Molecular Cell PMID: 35809572 | 2022 |
| Johnson J.R., Crosby D.C., Hultquist J.F., Kurland A.P., Adhikary P., Li D., Marlett J., Swann J., Hüttenhain R., Verschueren E., Johnson T.L., Newton B.W., Shales M., Simon V.A., Beltrao P., Frankel A.D., Marson A., Cox J.S., Fregoso O.I., Young J.A.T., Krogan N.J. | Global post-translational modification profiling of HIV-1-infected cells reveals mechanisms of host cellular pathway remodeling. | Cell Reports PMID: 35417684 | 2022 |
| Packard T.A., Schwarzer R., Herzig E., Rao D., Luo X., Egedal J.H., Hsiao F., Widera M., Hultquist J.F., Grimmett Z.W., Messer R.J., Krogan N.J., Deeks S.G., Roan N.R., Dittmer U., Hasenkrug K.J., Greene W.C. | CCL2: a Chemokine Potentially Promoting Early Seeding of the Latent HIV Reservoir. | mBio PMID: 36073812 | 2022 |
| Alisoltani A., Jaroszewski L., Godzik A., Iranzadeh A., Simons L.M., Dean T.J., Lorenzo-Redondo R., Hultquist J.F., Ozer E.A. | ViralVar: A Web Tool for Multilevel Visualization of SARS-CoV-2 Genomes. | Viruses PMID: 36560718 | 2022 |
| Ling Hu T., Rios Guzman E., Lorenzo-Redondo R., Ozer E.A., Hultquist J.F. | Challenges and Opportunities for Global Genomic Surveillance Strategies in the COVID-19 Era. | Viruses PMID: 36423141 | 2022 |
| Cisneros W.J., Cornish D., Hultquist J.F. | Application of CRISPR-Cas9 Gene Editing for HIV Host Factor Discovery and Validation. | Pathogens PMID: 36015010 | 2022 |
| Rios Guzman E., Hultquist J.F.. | Clinical and biological consequences of respiratory syncytial virus genetic diversity. | Therapeutics Advances in Infectious Disease PMID: 36225856 | 2022 |
| Reyna M.E., Edward P.R., Ozer E.A., Simons L.M., Hultquist J.F., Lorenzo-Redondo R., Patel A.B., Kociolek L.K. | Incidence and Clinical Characteristics of Severe Acute Respiratory Syndrome Coronavirus 2 Infection After Vaccination in Children. | Journal of Pediatrics PMID: 35961427 | 2022 |
| Edward P.R., Lorenzo-Redondo R., Reyna M.E., Simons L.M., Hultquist J.F., Patel A.B., Ozer E.A., Muller W.J., Heald-Sargent T., McHugh M., Dean T., Dalal R.M., John J., Manz S.C., Kociolek L.K. | Severity of Illness Caused by Severe Acute Respiratory Syndrome Coronavirus 2 Variants of Concern in Children: A Single-Center Retrospective Cohort Study. | Journal of the Pediatric Infectious Diseases Society PMID: 35924454 | 2022 |
| Lorenzo-Redondo R., Ozer E.A., Hultquist J.F. | Covid-19: is omicron less lethal than delta? | BMJ PMID: 35918084 | 2022 |
| Fernandez-de Céspedes M.V., Hoffman H.K., Carter H., Simons L.M., Naing L., Ablan S.D., Scheiblin D.A., Hultquist J.F., van Engelenburg S.B., Freed E.O. | Rab11-FIP1C Is Dispensable for HIV-1 Replication in Primary CD4+ T Cells, but Its Role Is Cell Type Dependent in Immortalized Human T-Cell Lines. | Journal of Virology PMID: 36354340 | 2022 |
| Simons L.M., Ozer E.A., Gambut S., Dean T.J., Zhang L., Bhimalli P., Schneider J.R., Mamede J.I., Ison M.G., Karmali R., Gordon L.I., Lorenzo-Redondo R., Hultquist J.F. | De novo emergence of SARS-CoV-2 spike mutations in immunosuppressed patients. | Transplant Infectious Diseases PMID: 35899968 | 2022 |
| Ke R., Martinez P.P., Smith R.L., Gibson L.L., Achenbach C.J., McFall S., Qi C., Jacob J., Dembele E., Bundy C., Simons L.M., Ozer E.A., Hultquist J.F., Lorenzo-Redondo R., Opdycke A.K., Hawkins C., Murphy R.L., Mirza A., Conte M., Gallagher N., Luo C.H., Jarrett J., Conte A., Zhou R., Farjo M., Rendon G., Fields C.J., Wang L., Fredrickson R., Baughman M.E., Chiu K.K., Choi H., Scardina K.R., Owens A.N., Broach J., Barton B., Lazar P., Robinson M.L., Mostafa H.H., Manabe Y.C., Pekosz A., McManus D.D., Brooke C.B. | Longitudinal Analysis of SARS-CoV-2 Vaccine Breakthrough Infections Reveals Limited Infectious Virus Shedding and Restricted Tissue Distribution. | Open Forum Infectious Diseases PMID: 35791353 | 2022 |
| Agarwal D.K., Hunt A.C., Shekhawat G.S., Carter L., Chan S., Wu K., Cao L., Baker D., Lorenzo-Redondo R., Ozer E.A., Simons L.M., Hultquist J.F., Jewett M.C., Dravid V.P. | Rapid and Sensitive Detection of Antigen from SARS-CoV-2 Variants of Concern by a Multivalent Minibinder-Functionalized Nanomechanical Sensor. | Analytical Chemistry PMID: 35652578 | 2022 |
| Lundberg A.L., Lorenzo-Redondo R., Hultquist J.F., Hawkins C.A., Ozer E.A., Welch S.B., Prasad P.V.V., Achenbach C.J., White J.I., Oehmke J.F., Murphy R.L., Havey R.J., Post L.A. | Overlapping Delta and Omicron Outbreaks During the COVID-19 Pandemic: Dynamic Panel Data Estimates. | JMIR Public Health and Surveillance PMID: 35500140 | 2022 |
| Mithal L.B., Otero S., Simons L.M., Hultquist J.F., Miller E.S., Ozer E.A., Shanes E.D., Goldstein J.A. | Low-level SARS-CoV-2 viremia coincident with COVID placentitis and stillbirth. | Placenta PMID: 35290925 | 2022 |
| Madden P.J., Thomas Y., Blair R.V., Samer S., Doyle M., Midkiff C.C., Doyle-Meyers L.A., Becker M.E., Arif M.S., McRaven M.D., Simons L.M., Carias A.M., Martinelli E., Lorenzo-Redondo R., Hultquist J.F., Villinger F.J., Veazey R.S., Hope T.J. | An immunoPET probe to SARS-CoV-2 reveals early infection of the male genital tract in rhesus macaques. | BioRxiv PMID: 35262081 | 2022 |
| Selyutina A., Simons L.M., Kirby K.A., Bulnes-Ramos A., Hu P., Sarafianos S.G., Hultquist J.F., Diaz-Griffero F. | TRIM5α Restriction of HIV-1-N74D Viruses in Lymphocytes Is Caused by a Loss of Cyclophilin A Protection | Viruses PMID: 35215956 | 2022 |
| Simons, L.M, Lorenzo-Redondo R., Gibson M, Kinch S.L., Vandervaart J.P., Reiser N.L., Eren M., Lux E., McNally E.M., Tambur A.R., Vaughan D.E., Bachta K.E.R., Demonbreun A.R., Satchell K.J.F., Achenbach C.J., Ozer E.A., Ison M.G., Hultquist J.F. | Assessment of Virological Contributions to COVID-19 Outcomes in a Longitudinal Cohort of Hospitalized Adults | Open Forum Infectious Diseases PMID: 35198645 | 2022 |
| Lundberg A.L., Lorenzo-Redondo R, Ozer E.A., Hawkins C.A., Hultquist J.F., Welch S.B., Prasad P.V.V., Oehmke J.F., Achenbach C.J., Murphy R.L., White J.I., Havey R.J., Post L.A. | Has Omicron Changed the Evolution of the Pandemic? | JMIR Public Health Surveillance PMID: 35072638 | 2022 |
| Siddiqui S.M., Bowman K.A., Zhu A.L., Fischinger S, Beger S, Maron J.S., Bartsch Y.C., Atyeo C, Gorman M.J., Yanis A, Hultquist J.F. , Lorenzo-Redondo R, Ozer E.A., Simons L.M., Talj R, Rankin D.A., Chapman L, Meade K, Steinhart J, Mullane S, Siebert S, Streeck H, Sabeti P, Halasa N, Musk E.R., Barouch D.H., Menon A.S., Nilles E.J., Lauffenburger D.A., Alter G. | Serological Markers of SARS-CoV-2 Reinfection. | mBio PMID: 35073738 | 2022 |
| Luo Z., Li M., Li T.W., Lv Z., Ye Z., Cisneros W.J., Zhang J., Yuan L., Hultquist J.F., Migueles S.A., Huang L., Zhu J., Jiang W. | Differential Expression of CREM/ICER Isoforms Is Associated with the Spontaneous Control of HIV Infection | mBio. PMID: 35041523 | 2022 |
| Martin-Sancho L, Lewinski M.K., Pache L, Stoneham C.A., Yin X, Becker M.E., Pratt D, Churas C, Rosenthal S.B., Liu S, Weston S, De Jesus P.D., O'Neill A.M., Gounder A.P., Nguyen C, Pu Y, Curry H.M., Oom A.L., Miorin L, Rodriguez-Frandsen A, Zheng F, Wu C, Xiong Y, Urbanowski M, Shaw M.L., Chang M.W., Benner C, Hope T.J., Frieman M.B., García-Sastre A, Ideker T, Hultquist J.F. , Guatelli J, Chanda S.K. | Functional landscape of SARS-CoV-2 cellular restriction | Molecular Cell PMID: 33930332 | 2021 |
| Lorenzo-Redondo R, Nam H.H., Roberts S.C., Simons L.M., Jennings L.J., Qi C, Achenbach C.J., Hauser A.R., Ison M.G., Hultquist J.F., Ozer E.A. | A clade of SARS-CoV-2 viruses associated with lower viral loads in patient upper airways. | EBioMedicine PMID: 33186810 | 2021 |
| Yin X, Riva L, Pu Y, Martin-Sancho L, Kanamune J, Yamamoto Y, Sakai K, Gotoh S, Miorin L, De Jesus P.D., Yang C.C., Herbert K.M., Yoh S, Hultquist J.F., García-Sastre A, Chanda S.K. | MDA5 Governs the Innate Immune Response to SARS-CoV-2 in Lung Epithelial Cells | Cell Reports PMID: 33440148 | 2021 |
| Martin-Sancho L, Tripathi S, Rodriguez-Frandsen A, Pache L, Sanchez-Aparicio M, McGregor M.J., Haas K.M., Swaney D.L., Nguyen T.T., Mamede J.I., Churas C, Pratt D, Rosenthal S.B., Riva L, Nguyen C, Beltran-Raygoza N, Soonthornvacharin S, Wang G, Jimenez-Morales D, De Jesus P.D., Moulton H.M., Stein D.A., Chang M.W., Benner C, Ideker T, Albrecht R.A., Hultquist J.F., Krogan N.J., García-Sastre A, Chanda S.K. | Restriction factor compendium for influenza A virus reveals a mechanism for evasion of autophagy | Nature Microbiology PMID: 34556855 | 2021 |
| Chai Q, Li S, Collins M.K., Li R, Ahmad I, Johnson S.F., Frabutt D.A., Yang Z, Shen X, Sun L, Hu J, Hultquist J.F., Peterlin B.M., Zheng Y | HIV-1 Nef interacts with the cyclin K/CDK13 complex to antagonize SERINC5 for optimal viral infectivity | Cell Reports PMID: 34380030 | 2021 |
| Kociolek L.K., Patel A.B., Hultquist J.F., Ozer E.A., Simons L.M., McHugh M, Muller W.J., Lorenzo-Redondo R | Viral whole-genome sequencing to assess impact of universal masking on SARS-CoV-2 transmission among pediatric healthcare workers. | Infection Control & Hospital Epidemiology PMID: 34593066 | 2021 |
| Selyutina A, Hu P, Miller S, Simons L.M. , Yu H.J., Hultquist J.F., Lee K, KewalRamani V.N., Diaz-Griffero F. | GS-CA1 and lenacapavir stabilize the HIV-1 core and modulate the core interaction with cellular factors. | iScience PMID: 35005542 | 2021 |
| Edward P.R., Reyna M.E., Daly M.K., Hultquist J.F., Muller W.J., Ozer EA, Lorenzo-Redondo R, Seed P.C., Simons L.M., Sheehan K, Staples J, Kociolek | Screening Students and Staff for Asymptomatic Coronavirus Disease 2019 in Chicago Schools | The Journal of Pediatrics PMID: 34416262 | 2021 |
| Hiatt J, Cavero D.A., McGregor M.J., Zheng W, Budzik J.M., Roth T.L., Haas K.M., Wu D, Rathore U, Meyer-Franke A, Bouzidi M.S., Shifrut E, Lee Y, Kumar V.E., Dang E.V., Gordon D.E., Wojcechowskyj J.A., Hultquist J.F., Fontaine K.A., Pillai S.K., Cox J.S., Ernst J.D., Krogan N.J., Marson A | Efficient generation of isogenic primary human myeloid cells using CRISPR-Cas9 ribonucleoproteins | Cell Reports PMID: 33979618 | 2021 |
| Agarwal D.K., Nandwana V, Henrich S.E., Josyula V.P.V.N., Thaxton C.S., Qi C, Simons L.M., Hultquist J.F., Ozer E.A., Shekhawat G.S., Dravid V.P.. | Highly sensitive and ultra-rapid antigen-based detection of SARS-CoV-2 using nanomechanical sensor platform | Biosensors and Bioelectronics PMID: 34583103 | 2021 |
| Demonbreun A.R., McDade T.W., Pesce L, Vaught L.A., Reiser N.L., Bogdanovic E, Velez M.P., Hsieh R.R., Simons L.M., Saber R, Ryan D.T., Ison M.G., Hultquist J.F., Wilkins J.T., D'Aquila R.T., Mustanski B, McNally E.M. | Patterns and persistence of SARS-CoV-2 IgG antibodies in Chicago to monitor COVID-19 exposure | JCI Insight PMID: 33755598 | 2021 |
| Lorenzo-Redondo R, Ozer EA, Achenbach CJ, D'Aquila RT, Hultquist J.F. | Molecular epidemiology in the HIV and SARS-CoV-2 pandemics | Current Opinion in HIV and AIDS PMID: 33186230 | 2021 |
| Selyutina A., Simons L.M., Bulnes-Ramos A., Hultquist J.F., & Diaz Griffero, F. | Restriction of HIV-1 viruses bearing the capsid mutation N74D by human TRIM5a in lymphocytes is due to a loss of Cyclophilin A protection. | Cell Reports. | 2020 |
| Hiatt J.*, Hultquist J.F.*, Leenay R.T., Rheinemann L., McGregor M.J., Haas P., Roth T.L., Wojcechowskyj J.A., Sperber H., Tobin V., Woo J., Rathore U., Cavero D., Nguyen T.,Pillai S., Sundquist W., May A.P., Marson A., & Krogan N.J. | A Functional Map of HIV-Host Interactions in Primary CD4+ T Cells. | Nature Immunology. PMID: 35365639 | 2020 |
| Selyutina A., Persaud M., Simons L.M., Bulnes-Ramos A., Buffone C., Martinez-Lopez A., Scoca V., Di Nunzio F., Hiatt J., Marson A., Krogan N.J., Hultquist J.F., & Diaz Griffero, F. | Cyclophilin A Prevents HIV-1 Restriction in Lymphocytes by Blocking TRIM5a Binding to the Viral Core. | Cell Reports. PMID: 32187548 | 2020 |
| Du Y., Hultquist J.F., Zhou Q., Olson A., Tseng Y., Zhang T., Hong M., Tang K., Chen L., Meng X., McGregor M.J., Dai L., Gong D., Martin-Sancho L., Chanda S., Li X., Bensenger S., Krogan N.J., & Sun R. | mRNA display with library of even-distribution reveals cellular interactors of influenza virus NS1. | Nature Communications. PMID: 32415096. | 2020 |
| Eckhardt M.*, Hultquist J.F.*, Kaake R., Huttenhain R., & Krogan, N.J. | A Systems Approach to Infectious Disease. | Nature Reviews Genetics. PMID: 32060427. | 2020 |
| Leenay R.T., Aghazadeh A., Hiatt J., Tse D., Roth T., Apathy R., Shifrut E., Hultquist J.F., Krogan N.J., Wu Z., Cirolia G., Canaj H., Leonetti M.D., Marson A., May A.P., & Zou J. | Large dataset enables prediction of repair after CRISPR-Cas9 editing in primary T cells. | Nature Biotechnology. PMID: 31359007. | 2019 |
| Huttenhain R., Xu J., Burton L.A., Gordon D., Hultquist J.F., Johnson J.R., Satkamp L., Hiatt J., Rhee D.Y, Baek K., Crosby D.C., Frankel A.D., Marson A., Harper J.W., Alpi A.F., Schulman B.A., Gross J.D., & Krogan N.J. | ARIH2 is a Vif-dependent Regulator of CUL5-mediated APOBEC3G Degradation in HIV Infection. | Cell Host and Microbe. PMID: 31253590. | 2019 |
| Hultquist J.F., Hiatt J., Schumann K., McGregor M.J., Roth T.L., Haas P., Doudna J., Marson A., & Krogan, N.J. | CRISPR-Cas9 genome engineering of primary CD4+ T cells for the interrogation of HIV-host factor interactions. | Nature Protocols. PMID: 30559373. | 2019 |
| Batra J.*, Hultquist J.F.*, Liu D., Shtanko O., Von Dollen J., Satkamp L., Jang G.M., Luthra P., Schwarz T.M., Small G.I., Arnett E., Anantpadma M., Reyes A., Leung D.W., Kaake R., Haas P., Schmidt C.B., Schlesinger L.S., LaCount D.J., Davey R.A., Amarasinghe G.K., Basler C.F., & Krogan N.J. | Protein interaction mapping identifies RBBP6 as a negative regulator of Ebola virus replication. | Cell. PMID: 30550789. | 2018 |
| Liu D., Small G., Hultquist J.F., Krogan N.J., Batra J., Basler C., Leung D.W., & Amarasinghe G.K. | Biochemical and structural characterization of a host protein that binds Ebola VP30. | Journal of Immunology. 200: S182.32. | 2018 |
| Zhao N., Sebastiano V., Moshkina N., Mena N., Hultquist J.F., Jimenez-Morales D., Ma Y., Rialdi A., Albrecht R., Fenouil R., Sanchez-Aparicio M., Ayllon J., Ravisankar S., Haddad B., Ho J.S.Y., Low D., Jin J., Yurchenko V., Prinja R.K., Tarakhovsky A., Squatrito M., Pinto D., Allette K., Byun M., Smith M.L., Sebra R., Guccione E., Tumpey T., Krogan N.J., Greenbaum B., van Bakel H., Garcia-Sastre A., & Marazzi, I. | Influenza virus infection causes global RNAPII termination defects. | Nature Structural & Molecular Biology. PMID: 30177761. | 2018 |
| Chen S., Jang G.M., Hüttenhain R., Gordon D.E., Du D., Newton B.W., Johnson J.R., Hiatt J., Hultquist J.F., Johnson T.L., Liu Y., Burton L.A., Ye J., Reichermeier K.M., Stroud R.M., Marson A., Debnath J., Gross J.D., & Krogan N.J. | CRL4 AMBRA1 targets ElonginC for ubiquitination and degradation to modulate CRL5 signaling. | EMBO. PMID: 30166453. | 2018 |
| Dornfield D., Dudek A., Vausselin T., Gunther S., Hultquist J.F., Giese S., Khokhlova-Cubberley D., Chew Y.C., Krogan N.J., Garcia-Sastre A., Schwemmle M., & Shaw M.L. | SMARCA2-regulated host cell factors are required for MxA restriction of influenza A viruses. | Scientific Reports. PMID: 29391557 | 2018 |
| Binning J., Smith A., Hultquist J.F., Craik C.S., Caretta N., Campbell M.G., Burton L., La Greca F., McGregor M.J., Ta H.M., Bartholomeeusen K., Peterlin B.M., Krogan N.J., Sevillano N., Cheng Y., & Gross J.D. | Fab-based inhibitors reveal ubiquitin independent functions of HIV Vif neutralization of APOBEC3 restriction factors. | PLoS Pathogens. PMID: 29304101. | 2018 |
| Rialdi A., Hultquist J.F., Jimenez-Morales D., Peralta Z., Campisi L., Fenouil R., Moshkina N., Wang Z., Laffleur B., Kaake R., McGregor M., Haas K., Pefanis E., Albrecht R.A., Pache L., Chanda S., Jen J., Ochando J., Byun M., Basu U., Garcia-Sastre A., Krogan N.J., van Bakel H., & Marazzi, I. | The RNA Exosome Syncs IAV-RNAPII Transcription to Promote Viral Ribogenesis and Infectivity. | Cell. PMID: 28475896. | 2017 |
| Rauch B.J., Silvis M.R., Hultquist J.F., Waters C., McGregor M.J., Krogan N.J., & Bondy-Demony J. | Inhibition of CRISPR-Cas9 with Bacteriophage Proteins. | Cell. PMID: 28041849. | 2017 |
| Park R.*, Wang T.*, Koundakjian D., Hultquist J.F., LaMothe-Molina P., Monel B., Schumann K., Yu H., Krupzcak K.M., Garcia-Beltran W., Piechocka-Trocha A., Krogan N.J., Marson A., Sabatini D., Lander E., Hacohen N., & Walker, B.D. | A Genome-Wide CRISPR Screen Reveals a Remarkably Restricted Set of HIV Host Dependency Factors. | Nature Genetics. PMID: 27992415. | 2016 |
| Hultquist J.F.*, Schumann K.*, Woo J., Manganaro L., Simon V., Doudna J., Krogan N.J., & Marson, A. | A Cas9 Ribonucleoprotein Platform for Functional Genetic Studies of HIV-Host Interactions in Primary Human T Cells. | Cell Reports. PMID: 27783955. | 2016 |
| Heaton N.S., Moshkina N., Fenouil R., Gardner T.J., Aguirre S., Shah P.S., Zhao N., Manganaro L., Hultquist J.F., Noel J., Sachs D.H., Hamilton J., Leon P.E., Chawdury A., Tripathi S., Melegari C., Campisi L., Hai R., Metreveli G., Gamarnik A.V., García-Sastre A., Greenbaum B., Simon V., Fernandez-Sesma A., Krogan N.J., Mulder L.C., van Bakel H., Tortorella D., Taunton J., Palese P., & Marazzi I. | Targeting Viral Proteostasis Limits Influenza Virus, HIV, and Dengue Virus Infection. | Immunity. PMID: 26789921. | 2016 |
| Kane J.R., Hultquist J.F., Stanley D.J., Binning J.M., Johnson J.R., Johnson T., Newton W., Franks-Skiba K., Harris R.S., Gross J.D., & Krogan, N.J. | Lineage-Specific Hijacking of Non-Canonical E3 Ubiquitin Ligase Cofactors in the Evolution of Lentiviral Vif Anti-APOBEC3 Activity. | Cell Reports. PMID: 25981045. | 2015 |
| Refsland E.W., Hultquist J.F., Luengas E.M., Ikeda T., Shaban N.M., Law E.K., Brown W.L., Emerman M., & Harris, R.S. | Natural Polymorphisms in Human APOBEC3H and HIV-1 Vif Combine in Primary T Lymphocytes to Affect Viral G-to-A Mutation Levels and Infectivity. | PLoS Genetics. PMID: 25411794. | 2014 |
| Land A.M., Shaban N.M., Evans L., Hultquist J.F., Albin J.S., & Harris, R.S. | APOBEC3F Determinants of HIV-1 Vif Sensitivity. | Journal of Virology. PMID: 25142588. | 2014 |
| McDougle, R.M., Hultquist J.F., & Harris, R.S. | D316 is Critical for the Enzymatic Activity and HIV-1 Restriction Potential of Human and Rhesus APOBEC3B. | Virology. PMID: 23542011. | 2013 |
| Harris R.S., Hultquist J.F., & Evans D.T. | The Restriction Factors of Human Immunodeficiency Virus. | J. Biol. Chem. PMID: 23043100. | 2012 |
| Hultquist J.F., McDougle R.M., Anderson B.A., & Harris R.S. | HIV Type 1 Viral Infectivity Factor and the RUNX Transcription Factors Interact with Core Binding Factor β on Genetically Distinct Interfaces. | ARHR. PMID: 22725134. | 2012 |
| Refsland E.W., Hultquist J.F., & Harris R.S. (2012). | Endogenous origins of HIV-1 G-to-A hypermutation and restriction in the nonpermissive T cell line CEM2n. | PLoS Pathogens. PMID: 22807680. | 2012 |
| Lackey L., Demorest Z.L., Land A.M., Hultquist J.F., Brown W.L., & Harris R.S. | APOBEC3B and AID Have Similar Nuclear Import Mechanisms. | J. Mol. Biol. PMID: 22446380. | 2012 |
| Hultquist J.F., Binka M., LaRue R.S., Simon V., & Harris R.S. | Vif Proteins of Human and Simian Immunodeficiency Viruses Require Cellular CBFβ to Degrade APOBEC3 Restriction Factors. | Journal of Virology. PMID: 22205746. | 2012 |
| Jäger S.*, Kim D.*, Hultquist J.F.*, Shindo K., LaRue R., Kwon E., Li M., Anderson B., Yen L., Stanley D., Mahon C., Kane J., Franks-Skiba K., Cimermancic P., Burlingame A., Sali A., Craik C., Harris R.S., Gross J., & Krogan N. | Vif Hijacks CBFβ to Degrade APOBEC3G and Promote HIV-1 Infection. | Nature. PMID: 22190037. | 2012 |
| Hultquist J.F., Lengyel J.A., LaRue R.S., Lackey L.L., Brown W.L., & Harris R.S. | Human and Rhesus APOBEC3D, APOBEC3F, APOBEC3G, and APOBEC3H Demonstrate a Conserved Capacity to Restrict Vif-deficient HIV-1. | Journal of Virology. PMID: 21835787. | 2011 |
| Albin J.S., Hache G., Hultquist J.F., Brown W.L., & Harris R.S. | Long term Restriction by APOBEC3F Selects Human Immunodeficiency Type 1 Variants with Restored Vif Function. | Journal of Virology. PMID: 20686027. | 2010 |
| Hultquist J.F. & Harris R.S. | Leveraging APOBEC3 proteins to alter the HIV mutation rate and combat AIDS. | Future Virology. PMID: 20174454. | 2009 |
| Hultquist J.F. & Dorweiler J.E. | Feminized Tassels of Maize mop1 and ts1 Mutants Exhibit Altered Levels of miR156 and Specific SBP-box Genes. | Planta. PMID: 18800226. | 2008 |