Student Publications

Reynolds CA, Pelka S, Gjergjova F, Tasset I, Khawaja RR, Lindenau K, Krause GJ, Gavathiotis E, Cuervo AM, Macian F. Restoration of LAMP2A expression in old mice leads to changes in the T cell compartment that support improved immune function. Proc Natl Acad Sci U S A. 2024 Sep 17; 121(38):e2322929121.

Flamholz ZN, Li C, Kelly L. Improving viral annotation with artificial intelligence. mBio. 2024 Oct 16; 15(10):e0320623.

MacArthur IC, Ma L, Huang CY, Bhavsar H, Suzuki M, Dawlaty MM. Developmental DNA demethylation is a determinant of neural stem cell identity and gliogenic competence.Sci Adv. 2024 Aug 30; 10(35):eado5424.

Ueda K, Chin SS, Sato N, Nishikawa M, Yasuda K, Miyasaka N, Bera BS, Chorro L, Doña-Termine R, Koba WR, Reynolds D, Steidl UG, Lauvau G, Greally JM, Suzuki M. Prenatal vitamin D deficiency exposure leads to long-term changes in immune cell proportions. Sci Rep. 2024 Aug 27; 14(1):19899.

Nuqui X, Casalino L, Zhou L, Shehata M, Wang A, Tse AL, Ojha AA, Kearns FL, Rosenfeld MA, Miller EH, Acreman CM, Ahn SH, Chandran K, McLellan JS, Amaro RE. Simulation-driven design of stabilized SARS-CoV-2 spike S2 immunogens. Nat Commun. 2024 Aug 27; 15(1):7370.

Lipton ML, Fleysher R, Song JY, Ye K, Zimmerman ME, Lipton RB, Daily JP. Brain effects of mild COVID-19 in healthy young adults: A pilot study. Heliyon. 2024 Jul 18; 10(15):e34764.

Sharma R, Amdare NP, Ghosh A, Schloss J, Sidney J, Garforth SJ, Lopez Y, Celikgil A, Sette A, Almo SC, DiLorenzo TP. Structural and biochemical analysis of highly similar HLA-B allotypes differentially associated with type 1 diabetes. J Biol Chem. 2024 Aug 20:107702. Epub ahead of print.

Muñoz Perez N, Pensabene JM, Galbo PM Jr, Sadeghipour N, Xiu J, Moziak K, Yazejian RM, Welch RL, Bell WR, Sengupta S, Aulakh S, Eberhart CG, Loeb DM, Eskandar E, Zheng D, Zang X, Martin AM. VISTA emerges as a promising target against immune evasion mechanisms in medulloblastoma. Cancers (Basel). 2024 Jul 24; 16(15):2629.

Pecorari IL, Reynolds JA, Agarwal V. The relationship between race, social vulnerability index, and clinical follow-up after surgical resection of pituitary tumors. World Neurosurg. 2024 Aug 6:S1878-8750(24)01362-7. Epub ahead of print.

Shin OS, Monticelli SR, Hjorth CK, Hornet V, Doyle M, Abelson D, Kuehne AI, Wang A, Bakken RR, Mishra AK, Middlecamp M, Champney E, Stuart L, Maurer DP, Li J, Berrigan J, Barajas J, Balinandi S, Lutwama JJ, Lobel L, Zeitlin L, Walker LM, Dye JM, Chandran K, Herbert AS, Pauli NT, McLellan JS. Crimean-Congo hemorrhagic fever survivors elicit protective non-neutralizing antibodies that target 11 overlapping regions on glycoprotein GP38. Cell Rep. 2024 Jul 12; 43(7):114502.

Mulholland CV, Wiggins TJ, Cui J, Vilchèze C, Rajagopalan S, Shultis MW, Reyes-Fernández EZ, Jacobs WR Jr, Berney M. Propionate prevents loss of the PDIM virulence lipid in Mycobacterium tuberculosis. Nat Microbiol. 2024 Jun; 9(6):1607-1618.

Nishimura CD, Corrigan D, Zheng XY, Galbo PM Jr, Wang S, Liu Y, Wei Y, Suo L, Cui W, Mercado N, Zheng D, Zhang CC, Zang X. TOP CAR with TMIGD2 as a safe and effective costimulatory domain in CAR cells treating human solid tumors. Sci Adv. 2024 May 10; 10(19):eadk1857.

Rosean S*, Sosa EA*, O'Shea D, Raj SM, Seoighe C, Greally JM. Regulatory landscape enrichment analysis (RLEA): a computational toolkit for non-coding variant enrichment and cell type prioritization. BMC Bioinformatics. 2024 May 7; 25(1):179. (*contributed equally).

Su H, Mueller A, Goldstein H. Recent advances on anti-HIV chimeric antigen receptor-T-cell treatment to provide sustained HIV remission. Curr Opin HIV AIDS. 2024 May 2. doi: 10.1097/COH.0000000000000858. Epub ahead of print.

Vercellino J, Małachowska B, Kulkarni S, Bell BI, Shajahan S, Shinoda K, Eichenbaum G, Verma AK, Ghosh SP, Yang WL, Frenette PS, Guha C. Thrombopoietin mimetic stimulates bone marrow vascular and stromal niches to mitigate acute radiation syndrome. Stem Cell Res Ther. 2024 Apr 29; 15(1):123.

Reynolds JA, Pecorari IL, Ledet A, Agarwal V. High-Grade Glioma Recurrence Is Delayed in Hispanic Patients despite Severe Social Vulnerability: A Retrospective Cohort Study. Cancers (Basel). 2024 Apr 20; 16(8):1579.

Bae AJ, Ferger R, JL. Peña. Auditory competition and coding of relative stimulus strength across midbrain space maps of Barn Owls. J Neurosci. 2024 Apr 25:e2081232024.

Kreutzer AG*, Malonis RJ*, Parrocha CMT, Tong K, Guaglianone G, Nguyen JT, Diab MN, Lai JR, Nowick JS. Generation and Study of Antibodies against Two Triangular Trimers Derived from Aβ. Pept Sci (Hoboken). 2024 Mar; 116(2):e24333.

Piszczatowski RT, Buelow H, Steidl U. Heparan Sulfates and Heparan Sulfate Proteoglycans in Hematopoiesis. Blood. 2024 Mar 22:blood.2023022736. doi: 10.1182/blood.2023022736. Epub ahead of print.

Reynolds J, Huang M, Li Y, Meineck M, Moeckel T, Weinmann-Menke J, Mohan C, Schwarting A, Putterman C. Constitutive knockout of interleukin-6 ameliorates memory deficits and entorhinal astrocytosis in the MRL/lpr mouse model of neuropsychiatric lupus. J Neuroinflammation. 2024 Apr 10; 21(1):89.

Yheskel M, Hatch HAM, Pedrosa E, Terry BK, Siebels AA, Zheng XY, Blok LER, Fencková M, Sidoli S, Schenck A, Zheng D, Lachman HM, Secombe J. KDM5-mediated transcriptional activation of ribosomal protein genes alters translation efficiency to regulate mitochondrial metabolism in neurons. Nucleic Acids Res. 2024 Apr 10:gkae261.

O'Leary K, Zheng D. Metacell-based differential expression analysis identifies cell type specific temporal gene response programs in COVID-19 patient PBMCs. NPJ Syst Biol Appl. 2024 Apr 5; 10(1):36.

Yu X, Benitez G, Wei PT, Krylova SV, Song Z, Liu L, Zhang M, Xiaoli AM, Wei H, Chen F, Sidoli S, Yang F, Shinoda K, Pessin JE, Feng D. Involution of brown adipose tissue through a Syntaxin 4 dependent pyroptosis pathway. Nat Commun. 2024 Apr 2; 15(1):2856.

Eligulashvili A, Darrell M, Gordon M, Jerome W, Fiori KP, Congdon S, Duong TQ. Patients with unmet social needs are at higher risks of developing severe long COVID-19 symptoms and neuropsychiatric sequela. Sci Rep. 2024 Apr 2; 14(1):7743.

Moore E, Bharrhan S, Rao DA, Macian F, Putterman C. Characterisation of choroid plexus-infiltrating T cells reveals novel therapeutic targets in murine neuropsychiatric lupus. Ann Rheum Dis. 2024 Mar 26:ard-2023-224689.

Shin OS, Monticelli SR, Hjorth CK, Hornet V, Doyle M, Abelson D, Kuehne AI, Wang A, Bakken RR, Mishra A, Middlecamp M, Champney E, Stuart L, Maurer DP, Li J, Berrigan J, Barajas J, Balinandi S, Lutwama JJ, Lobel L, Zeitlin L, Walker LM, Dye JM, Chandran K, Herbert AS, Pauli NT, McLellan JS. Crimean-Congo Hemorrhagic Fever Survivors Elicit Protective Non-Neutralizing Antibodies that Target 11 Overlapping Regions on Viral Glycoprotein GP38. bioRxiv [Preprint]. 2024 Mar 6:2024.03.02.583110.

Hsieh CL, Leist SR, Miller EH, Zhou L, Powers JM, Tse AL, Wang A, West A, Zweigart MR, Schisler JC, Jangra RK, Chandran K, Baric RS, McLellan JS. Prefusion-stabilized SARS-CoV-2 S2-only antigen provides protection against SARS-CoV-2 challenge. Nat Commun. 2024 Feb 20; 15(1):1553.

Williams DKA, Christophers B, Keyes T, Kumar R, Granovetter MC, Adigun A, Olivera J, Pura-Bryant J, Smith C, Okafor C, Shibre M, Daye D, Akabas MH. Sociodemographic factors and research experience impact MD-PhD program acceptance. JCI Insight. 2024 Feb 8; 9(3):e176146.

Fooksman DR, Jing Z, Park R. New insights into the ontogeny, diversity, maturation and survival of long-lived plasma cells. Nat Rev Immunol. 2024 Feb 8. doi: 10.1038/s41577-024-00991-0. Epub ahead of print.

Flamholz ZN, Biller SJ, Kelly L. Large language models improve annotation of prokaryotic viral proteins. Nat Microbiol. 2024 Feb; 9(2):537-549.

Fluss R, Lo Bu R, Kobets AJ, Gomez JA. The complex treatment paradigms for concomitant tethered cord and scoliosis: illustrative case. J Neurosurg Case Lessons. 2024 Jan 29; 7(5):CASE23574.

Bera BS, Thompson TV, Sosa E, Nomaru H, Reynolds D, Dubin RA, Maqbool SB, Zheng D, Morrow BE, Greally JM, Suzuki M. An optimized approach for multiplexing single-nuclear ATAC-seq using oligonucleotide-conjugated antibodies. Epigenetics Chromatin. 2023 Apr 28; 16(1):14. doi: 10.1186/s13072-023-00486-7.

Pierce CA, Loh LN, Steach HR, Cheshenko N, Preston-Hurlburt P, Zhang F, Stransky S, Kravets L, Sidoli S, Philbrick WM, Nassar MN, Krishnaswamy S, Herold KC, Herold BC. HSV-2 triggers upregulation of MALAT1 in CD4+ T cells and promotes HIV latency reversal. J Clin Invest. 2023 Apr 20:e164317. doi: 10.1172/JCI164317. Epub ahead of print.

Yang Y, Kang M, Chen CC, Hu L, Yu F, Tsai P, Huang S, Liu J, Turner R, Shen B, Hasan S, Chhabra AM, Choi JI, Bell B, Pennock M, Tome WA, Guha C, Simone CB 2nd, Lin H. Commissioning a 250 MeV research beamline for proton FLASH radiotherapy preclinical experiments. Med Phys. 2023 Mar 17. doi: 10.1002/mp.16364. Epub ahead of print.

Krylova SV, Glickman S, Kalam A, Chemakin K, Yi J, Forrester L, Mishall P, Pinkas A. Hilar Abnormality in the Left Lung: Left Pulmonary Artery Posterior to the Left Mainstem Bronchus. Int Med Case Rep J. 2023 Mar 10; 16:135-139.

Charney MF, Ye KQ, Fleysher R, DeMessie B, Stewart WF, Zimmerman ME, Kim M, Lipton RB, Lipton ML. Age of first exposure to soccer heading: Associations with cognitive, clinical, and imaging outcomes in the Einstein Soccer Study. Front Neurol. 2023 Feb 9; 14:1042707.

Charney MF, Ye KQ, Fleysher R, DeMessie B, Stewart WF, Zimmerman ME, Kim M, Lipton RB, Lipton ML. Age of first exposure to soccer heading: Associations with cognitive, clinical, and imaging outcomes in the Einstein Soccer Study. Front Neurol. 2023 Feb 9; 14:1042707.

Yheskel M, Sidoli S, Secombe J. Proximity labeling reveals a new in vivo network of interactors for the histone demethylase KDM5. Epigenetics Chromatin. 2023 Feb 18; 16(1):8.

Romano JD, Mayoral J, Guevara RB, Rivera-Cuevas Y, Carruthers VB, Weiss LM, Coppens I. Toxoplasma scavenges mammalian host organelles through the usurpation of host ESCRT-III and Vps4. J Cell Sci. 2023 Jan 31:jcs.260159. doi: 10.1242/jcs.260159. Epub ahead of print.

Reynolds JA, Putterman C. Progress and unmet needs in understanding fundamental mechanisms of autoimmunity. J Autoimmun.2023 Jan 29:102999. doi: 10.1016/j.jaut.2023.102999. Epub ahead of print.

Novaj A, Engel MG, Wang R, Mao K, Xue X, Amir Y, Atzmon G, Huffman DM. Dietary Walnuts Preserve Aspects of Health Span and Alter the Hippocampal Lipidome in Aged High-Fat Diet-Fed Mice. Int J Mol Sci. 2023 Jan 24; 24(3):2314.

Aaron T, Laudermilch E, Benet Z, Ovando LJ, Chandran K, Fooksman D. TNF-α Limits Serological Memory by Disrupting the Bone Marrow Niche. J Immunol.2023 Jan 11:ji2200053. doi: 10.4049/jimmunol.2200053. Epub ahead of print.

Krylova SV, Feng D. The Machinery of Exosomes: Biogenesis, Release, and Uptake. Int J Mol Sci. 2023 Jan 10; 24(2):1337.

Cui J, Zhang C, Lee JE, Bartholdy BA, Yang D, Liu Y, Erler P, Galbo PM Jr, Hodge DQ, Huangfu D, Zheng D, Ge K, Guo W. MLL3 loss drives metastasis by promoting a hybrid epithelial-mesenchymal transition state. Nat Cell Biol. 2023 Jan 5. doi: 10.1038/s41556-022-01045-0. Epub ahead of print.

Eligulashvili A, Darrell M, Miller C, Lee J, Congdon S, Lee JS, Hsu K, Yee J, Hou W, Islam M, Duong TQ. COVID-19 Patients in the COVID-19 Recovery and Engagement (CORE) Clinics in the Bronx. Diagnostics (Basel). 2022 Dec 30; 13(1):119.

Song JY, Delbourgo Patton C, Friedman R, Mahajan LS, Nordlicht R, Sayed R, Lipton ML. Hormonal Contraceptives and the Brain: A Systematic Review on 60 years of Neuroimaging, EEG, and Biochemical Studies in Humans and Animals. Front Neuroendocrinol. 2022 Dec 25:101051. doi: 10.1016/j.yfrne.2022.101051. Epub ahead of print.

Weinreb J, Arora S. Acromegaly. N Engl J Med. 2023 Jan 5; 388(1):70.

Gurska LM, Okabe R, Schurer A, Tong MM, Soto M, Choi D, Ames K, Glushakow-Smith S, Montoya A, Tein E, Miles LA, Cheng H, Giblin P, Levine RL, Goel S, Halmos B, Gritsman K. Crizotinib has Preclinical Efficacy in Philadelphia-negative Myeloproliferative Neoplasms. Clin Cancer Res. 2022 Dec 20:CCR-22-1763. doi: 10.1158/1078-0432.CCR-22-1763. Epub ahead of print.

Augustine T, John P, Friedman T, Jiffry J, Guzik H, Mannan R, Gupta R, Delano C, Mariadason JM, Zang X, Maitra R, Goel S. Potentiating effect of reovirus on immune checkpoint inhibition in microsatellite stable colorectal cancer. Front Oncol. 2022 Oct 25; 12:1018767.

Moore-Fried J*, Paul M*, Jing Z, Fooksman D, Lauvau G. CD169⁺ macrophages orchestrate plasmacytoid dendritic cell arrest and retention for optimal priming in the bone marrow of malaria-infected mice. Elife. 2022 Oct 24; 11:e78873. (*contributed equally)

Wolfson SJ, Hitchings R, Peregrina K, Cohen Z, Khan S, Yilmaz T, Malena M, Goluch ED, Augenlicht L, Kelly L. Bacterial hydrogen sulfide drives cryptic redox chemistry in gut microbial communities. Nat Metab. 2022 Oct; 4(10):1260-1270.

Barbaro JM, Jaureguiberry-Bravo M, Sidoli S, Berman JW. Morphine disrupts macrophage functions even during HIV infection. J Leukoc Biol. 2022 Nov; 112(5):1317-1328.

Ulahannan N, Cutler R, Doña-Termine R, Simões-Pires CA, Wijetunga NA, Croken MM, Johnston AD, Kong Y, Maqbool SB, Suzuki M, Greally JM. Genomic insights into host and parasite interactions during intracellular infection by Toxoplasma gondii. PLoS One. 2022 Sep 30; 17(9):e0275226.

Krause GJ, Diaz A, Jafari M, Khawaja RR, Agullo-Pascual E, Santiago-Fernández O, Richards AL, Chen KH, Dmitriev P, Sun Y, See SK, Abdelmohsen K, Mazan-Mamczarz K, Krogan NJ, Gorospe M, Swaney DL, Sidoli S, Bravo-Cordero JJ, Kampmann M, Cuervo AM. Reduced endosomal microautophagy activity in aging associates with enhanced exocyst-mediated protein secretion. Aging Cell. 2022 Oct; 21(10):e13713.

 Núñez L, Buxbaum AR, Katz ZB, Lopez-Jones M, Nwokafor C, Czaplinski K, Pan F, Rosenberg J, Monday HR, Singer RH. Tagged actin mRNA dysregulation in IGF2BP1[Formula: see text] mice. Proc Natl Acad Sci U S A. 2022 Sep 13; 119(37):e2208465119.

 Piszczatowski RT*, Schwenger E*, Sundaravel S, Stein CM, Liu Y, Stanley P, Verma A, Zheng D, Seidel RD, Almo SC, Townley RA, Bülow HE, Steidl U. A glycan-based approach to cell characterization and isolation: Hematopoiesis as a paradigm. J Exp Med. 2022 Nov 7; 219(11):e20212552.

 Shultis MW, Mulholland CV, Berney M. Are all antibiotic persisters created equal? Front Cell Infect Microbiol. 2022 Aug 17; 12:933458.

Saranathan R, Asare E, Leung L, de Oliveira AP, Kaugars KE, Mulholland CV, Lukose R, Berney M, Jacobs WR Jr. Capturing Structural Variants of Herpes Simplex Virus Genome in Full Length by Oxford Nanopore Sequencing. Microbiol Spectr. 2022 Aug 30:e0228522. doi: 10.1128/spectrum.02285-22. Epub ahead of print.

 Weinreb JT, Bowman TV. Clinical and mechanistic insights into the roles of DDX41 in hematological malignancies. FEBS Lett. 2022 Aug 29. doi: 10.1002/1873-3468.14487. Epub ahead of print.

 Bell BI, Vercellino J, Brodin NP, Velten C, Nanduri LSY, Nagesh PKB, Tanaka KE, Fang Y, Wang Y, Macedo R, English J, Schumacher MM, Duddempudi PK, Asp P, Koba W, Shajahan S, Liu L, Tomé WA, Yang WL, Kolesnick R, Guha C. Orthovoltage X-Rays Exhibit Increased Efficacy Compared with γ-Rays in Preclinical Irradiation. Cancer Res. 2022 Aug 3; 82(15):2678-2691.

 Nguyen TNB, Ely BA, Pick D, Patel M, Xie H, Kim-Schulze S, Gabbay V. Clenbuterol Attenuates Immune Reaction to Lipopolysaccharide and Its Relationship to Anhedonia in Adolescents. Brain Behav Immun. 2022 Jul 29:S0889-1591(22)00337-3. doi: 10.1016/j.bbi.2022.07.163. Epub ahead of print.

Ren X, Li Y, Nishimura C, Zang X. Crosstalk between the B7/CD28 and EGFR pathways: Mechanisms and therapeutic opportunities. Genes Dis. 2021 Sep 20; 9(5):1181-1193.

Fels JM, Khan S, Forster R, Skalina KA, Sirichand S, Fox AS, Bergman A, Mitchell WB, Wolgast LR, Szymczak WA, Bortz RH 3rd, Dieterle ME, Florez C, Haslwanter D, Jangra RK, Laudermilch E, Wirchnianski AS, Barnhill J, Goldman DL, Khine H, Goldstein DY, Daily JP, Chandran K, Kelly L. Genomic surveillance of SARS-CoV-2 during the first year of the pandemic in the Bronx enabled clinical and epidemiological inference. Cold Spring Harb Mol Case Stud. 2022 Jul 13:mcs.a006211. doi: 10.1101/mcs.a006211. Epub ahead of print.

 Diacou R, Nandigrami P, Fiser A, Liu W, Ashery-Padan R, Cvekl A. Cell fate decisions, transcription factors and signaling during early retinal development. Prog Retin Eye Res. 2022 Jul 8:101093. doi: 10.1016/j.preteyeres.2022.101093. Epub ahead of print.

 Engel MG, Smith J, Mao K, Quipildor GF, Cui MH, Gulinello M, Branch CA, Gandy SE, Huffman DM. Evidence for preserved insulin responsiveness in the aging rat brain. Geroscience. 2022 Jul 8. doi: 10.1007/s11357-022-00618-z. Epub ahead of print.

Zacharioudakis E, Agianian B, Kumar Mv V, Biris N, Garner TP, Rabinovich- Nikitin I, Ouchida AT, Margulets V, Nordstrøm LU, Riley JS, Dolgalev I, Chen Y, Wittig AJH, Pekson R, Mathew C, Wei P, Tsirigos A, Tait SWG, Kirshenbaum LA, Kitsis RN, Gavathiotis E. Modulating mitofusins to control mitochondrial function and signaling. Nat Commun. 2022 Jul 7; 13(1):3775.

 Mayoral J, Guevara RB, Rivera-Cuevas Y, Tu V, Tomita T, Romano JD, Gunther- Cummins L, Sidoli S, Coppens I, Carruthers VB, Weiss LM. Dense Granule Protein GRA64 Interacts with Host Cell ESCRT Proteins during Toxoplasma gondii Infection. mBio. 2022 Jun 22:e0144222. doi: 10.1128/mbio.01442-22. Epub ahead of print.

Myer PA, Kim H, Blümel AM, Finnegan E, Kel A, Thompson TV, Greally JM, Prehn JH, O'Connor DP, Friedman RA, Floratos A, Das S. Master Transcription Regulators and Transcription Factors Regulate Immune-Associated Differences Between Patients of African and European Ancestry With Colorectal Cancer. Gastro Hep Adv. 2022;1(3):328-341. doi: 10.1016/j.gastha.2022.01.004.

 Malonis RJ, Georgiev GI, Haslwanter D, VanBlargan LA, Fallon G, Vergnolle O, Cahill SM, Harris R, Cowburn D, Chandran K, Diamond MS, Lai JR. A Powassan virus domain III nanoparticle immunogen elicits neutralizing and protective antibodies in mice. PLoS Pathog. 2022 Jun 9; 18(6):e1010573. doi: 10.1371/journal.ppat.1010573. Epub ahead of print.

 Mayoral-Palarz K, Neves-Carvalho A, Duarte-Silva S, Monteiro-Fernandes D, Maciel P, Khodakhah K. Cerebellar neuronal dysfunction accompanies early motor symptoms in spinocerebellar ataxia type 3. Dis Model Mech. 2022 Jun 6:dmm.049514. doi: 10.1242/dmm.049514. Epub ahead of print.

 Moore E, Huang MW, Reynolds CA, Macian F, Putterman C. Choroid plexus- infiltrating T cells drive murine neuropsychiatric lupus. Arthritis Rheumatol. 2022 May 30. doi: 10.1002/art.42252. Epub ahead of print.

Lundy K, Greally JF, Essilfie-Bondzie G, Olivier JB, Doña-Termine R, Greally JM, Suzuki M. Vitamin D Deficiency During Development Permanently Alters Liver Cell Composition and Function. Front Endocrinol (Lausanne). 2022 May 12; 13:860286.

Joseph-Chowdhury JN, Stransky S, Graff S, Cutler R, Young D, Kim JS, Madrid- Aliste C, Aguilan JT, Nieves E, Sun Y, Yoo EJ, Sidoli S. Global Level Quantification of Histone Post-Translational Modifications in a 3D Cell Culture Model of Hepatic Tissue. J Vis Exp. 2022 May 5; (183). doi: 10.3791/63606.

 John P, Pulanco MC, Galbo PM Jr, Wei Y, Ohaegbulam KC, Zheng D, Zang X. The immune checkpoint B7x expands tumor-infiltrating Tregs and promotes resistance to anti-CTLA-4 therapy. Nat Commun. 2022 May 6; 13(1):2506.

Chin SS*, Guillen E*, Chorro L, Achar S, Ng K, Oberle S, Alfei F, Zehn D, Altan-Bonnet G, Delahaye F, Lauvau G. T cell receptor and IL-2 signaling strength control memory CD8+ T cell functional fitness via chromatin remodeling. Nat Commun. 2022 Apr 26; 13(1):2240. (*contributed equally).

Chrysanthou S, Flores JC, Dawlaty MM. Tet1 Suppresses p21 to Ensure Proper Cell Cycle Progression in Embryonic Stem Cells. Cells. 2022 Apr 17; 11(8):1366.

Abou-Jaoude A, Huang CY, Flores JC, Ravichandran M, Lei R, Chrysanthou S, Dawlaty MM. Idax and Rinf facilitate expression of Tet enzymes to promote neural and suppress trophectodermal programs during differentiation of embryonic stem cells. Stem Cell Res. 2022 Mar 29;61:102770. doi: 10.1016/j.scr.2022.102770. Epub ahead of print.

 Kenworthy CA, Haque N, Liou SH, Chandris P, Wong V, Dziuba P, Lavis LD, Liu WL, Singer RH, Coleman RA. Bromodomains regulate dynamic targeting of the PBAF chromatin remodeling complex to chromatin hubs. Biophys J. 2022 Mar 29:S0006-3495(22)00237-5. doi: 10.1016/j.bpj.2022.03.027. Epub ahead of print.

Madrigal-Matute J, de Bruijn J, van Kuijk K, Riascos-Bernal DF, Diaz A, Tasset I, Martín-Segura A, Gijbels MJJ, Sander B, Kaushik S, Biessen EAL, Tiano S, Bourdenx M, Krause GJ, McCracken I, Baker AH, Jin H, Sibinga NES, Bravo- Cordero JJ, Macian F, Singh R, Rensen PCN, Berbée JFP, Pasterkamp G, Sluimer JC, Cuervo AM. Protective role of chaperone-mediated autophagy against atherosclerosis. Proc Natl Acad Sci U S A. 2022 Apr 5; 119(14):e2121133119.

Pinho S, Wei Q, Maryanovich M, Zhang D, Balandrán JC, Pierce H, Nakahara F, Di Staulo A, Bartholdy BA, Xu J, Borger DK, Verma A, Frenette PS. VCAM1 confers innate immune tolerance on haematopoietic and leukaemic stem cells. Nat Cell Biol. 2022 Mar; 24(3):290-298.

Fleming A, Bourdenx M, Fujimaki M, Karabiyik C, Krause GJ, Lopez A, Martín-Segura A, Puri C, Scrivo A, Skidmore J, Son SM, Stamatakou E, Wrobel L, Zhu Y, Cuervo AM, Rubinsztein DC. The different autophagy degradation pathways and neurodegeneration. Neuron. 2022 Mar 16; 110(6):935-966.

 Spitz AZ, Gavathiotis E. Physiological and pharmacological modulation of BAX. Trends Pharmacol Sci. 2022 Mar; 43(3):206-220.

Georgiev GI, Malonis RJ, Wirchnianski AS, Wessel AW, Jung HS, Cahill SM, Nyakatura EK, Vergnolle O, Dowd KA, Cowburn D, Pierson TC, Diamond MS, Lai JR. Resurfaced ZIKV EDIII nanoparticle immunogens elicit neutralizing and protective responses in vivo. Cell Chem Biol. 2022 Feb 24:S2451-9456(22)00085-X. doi: 10.1016/j.chembiol.2022.02.004. Epub ahead of print.

Hards K, Cheung CY, Waller N, Adolph C, Keighley L, Tee ZS, Harold LK, Menorca A, Bujaroski RS, Buckley BJ, Tyndall JDA, McNeil MB, Rhee KY, Opel-Reading HK, Krause K, Preiss L, Langer JD, Meier T, Hasenoehrl EJ, Berney M, Kelso MJ, Cook GM. An amiloride derivative is active against the F₁F_o-ATP synthase and cytochrome bd oxidase of Mycobacterium tuberculosis. Commun Biol. 2022 Feb 24; 5(1):166.

Haslwanter D, Lasso G, Wec AZ, Furtado ND, Raphael LMS, Tse AL, Sun Y, Stransky S, Pedreño-Lopez N, Correia CA, Bornholdt ZA, Sakharkar M, Avelino- Silva VI, Moyer CL, Watkins DI, Kallas EG, Sidoli S, Walker LM, Bonaldo MC, Chandran K. Genotype-specific features reduce the susceptibility of South American yellow fever virus strains to vaccine-induced antibodies. Cell Host Microbe. 2022 Feb 9; 30(2):248-259.e6.

 Aaron TS, Fooksman DR. Dynamic Organization of the Bone Marrow Plasma Cell Niche. FEBS J. 2022 Feb 3. doi: 10.1111/febs.16385. Epub ahead of print.

 Wheat JC, Steidl U. Posttranscriptional Arid3a deregulation in AMKL. Blood. 2022 Feb 3; 139(5):637-638.

Zhang D, Gao X, Li H, Borger DK, Wei Q, Yang E, Xu C, Pinho S, Frenette PS. The microbiota regulates hematopoietic stem cell fate decisions by controlling iron availability in bone marrow. Cell Stem Cell. 2022 Feb 3; 29(2):232-247.e7.

Jakubik CT, Weckerly CC, Hammond GRV, Bresnick AR, Backer JM. PIP3 abundance overcomes PI3K signaling selectivity in invadopodia. FEBS Lett. 2022 Feb; 596(4):417-426.

 Cohen Z, Kelly L. Bioaccumulation as a mechanism of microbiome/drug interactions. Trends Microbiol. 2022 Feb; 30(2):99-101.

Lasso G*, Khan S*, Allen SA*, Mariano M, Florez C, Orner EP, Quiroz JA, Quevedo G, Massimi A, Hegde A, Wirchnianski AS, Bortz RH 3rd, Malonis RJ, Georgiev GI, Tong K, Herrera NG, Morano NC, Garforth SJ, Malaviya A, Khokhar A, Laudermilch E, Dieterle ME, Fels JM, Haslwanter D, Jangra RK, Barnhill J, Almo SC, Chandran K, Lai JR, Kelly L, Daily JP, Vergnolle O. Longitudinally monitored immune biomarkers predict the timing of COVID-19 outcomes. PLoS Comput Biol. 2022 Jan 18;18(1):e1009778. (*contributed equally).

Maron MI, Casill AD, Gupta V, Roth JS, Sidoli S, Query CC, Gamble MJ, Shechter D. Type I and II PRMTs inversely regulate post-transcriptional intron detention through Sm and CHTOP methylation. Elife.2022 Jan 5; 11:e72867.

Rivera-Cuevas Y, Mayoral J, Di Cristina M, Lawrence AE, Olafsson EB, Patel RK, Thornhill D, Waldman BS, Ono A, Sexton JZ, Lourido S, Weiss LM, Carruthers VB. Toxoplasma gondii exploits the host ESCRT machinery for parasite uptake of host cytosolic proteins. PLoS Pathog. 2021 Dec 13;17(12):e1010138.

Juste YR, Kaushik S, Bourdenx M, Aflakpui R, Bandyopadhyay S, Garcia F, Diaz A, Lindenau K, Tu V, Krause GJ, Jafari M, Singh R, Muñoz J, Macian F, Cuervo AM. Reciprocal regulation of chaperone-mediated autophagy and the circadian clock. Nat Cell Biol. 2021 Dec; 23(12):1255-1270.

Wang Y, Eddison M, Fleishman G, Weigert M, Xu S, Wang T, Rokicki K, Goina C, Henry FE, Lemire AL, Schmidt U, Yang H, Svoboda K, Myers EW, Saalfeld S, Korff W, Sternson SM, Tillberg PW. EASI-FISH for thick tissue defines lateral hypothalamus spatio-molecular organization. Cell. 2021 Dec 22; 184(26):6361-6377.e24.

Herman JD, Wang C, Loos C, Yoon H, Rivera J, Eugenia Dieterle M, Haslwanter D, Jangra RK, Bortz RH 3rd, Bar KJ, Julg B, Chandran K, Lauffenburger D, Pirofski LA, Alter G. Functional convalescent plasma antibodies and pre-infusion titers shape the early severe COVID-19 immune response. Nat Commun. 2021 Nov 25; 12(1):6853.

 Brace KM, Sussman ES. The Brain Tracks Multiple Predictions About the Auditory Scene. Front Hum Neurosci. 2021 Nov 3; 15:747769.

Lambros M, Pechuan-Jorge X, Biro D, Ye K, Bergman A. Emerging Adaptive Strategies Under Temperature Fluctuations in a Laboratory Evolution Experiment of Escherichia Coli. Front Microbiol. 2021 Oct 22; 12:724982.

Xu W, Biswas J, Singer RH, Rosbash M. Targeted RNA editing: novel tools to study post-transcriptional regulation. Mol Cell. 2021 Oct; 30:S1097-2765(21)00839-X.

Ishida E, Corrigan DT, Malonis RJ, Hofmann D, Chen T, Amin AG, Chatterjee D, Joe M, Lowary TL, Lai JR, Achkar JM. Monoclonal antibodies from humans with Mycobacterium tuberculosis exposure or latent infection recognize distinct arabinomannan epitopes. Commun Biol. 2021 Oct 12; 4(1):1181.

Haslwanter D, Dieterle ME, Wec AZ, O'Brien CM, Sakharkar M, Florez C, Tong K, Rappazzo CG, Lasso G, Vergnolle O, Wirchnianski AS, Bortz RH 3rd, Laudermilch E, Fels JM, Mengotto A, Malonis RJ, Georgiev GI, Quiroz JA, Wrapp D, Wang N, Dye KE, Barnhill J, Dye JM, McLellan JS, Daily JP, Lai JR, Herbert AS, Walker LM, Chandran K, Jangra RK. A Combination of Receptor-Binding Domain and N-Terminal Domain Neutralizing Antibodies Limits the Generation of SARS-CoV-2 Spike Neutralization-Escape Mutants. mBio. 2021 Oct 5:e0247321. doi: 10.1128/mBio.02473-21. Epub ahead of print.

Akhmetzyanova I, Aaron T, Galbo P, Tikhonova A, Dolgalev I, Tanaka M, Aifantis I, Zheng D, Zang X, Fooksman D. Tissue-resident macrophages promote early dissemination of multiple myeloma via IL-6 and TNFα. Blood Adv. 2021 Sep 28; 5(18):3592-3608.

 Hatch HAM, Secombe J. Molecular and cellular events linking variants in the histone demethylase KDM5C to the intellectual disability disorder Claes-Jensen syndrome. FEBS J. 2021 Sep 18. doi: 10.1111/febs.16204. Epub ahead of print.

 Malonis RJ, Earnest JT, Kim AS, Angeliadis M, Holtsberg FW, Aman MJ, Jangra RK, Chandran K, Daily JP, Diamond MS, Kielian M, Lai JR. Near-germline human monoclonal antibodies neutralize and protect against multiple arthritogenic alphaviruses. Proc Natl Acad Sci U S A. 2021 Sep 14; 118(37):e2100104118.

 Ulloa BA, Habbsa SS, Potts KS, Lewis A, McKinstry M, Payne SG, Flores JC, Nizhnik A, Feliz Norberto M, Mosimann C, Bowman TV. Definitive hematopoietic stem cells minimally contribute to embryonic hematopoiesis. Cell Rep. 2021 Sep 14; 36(11):109703.

Thakkar A, Cui Z, Peeke SZ, Shah N, Pradhan K, Lombardo A, Khatun F, Mustafa J, De Castro A, Gillick K, Joseph F, Naik A, Rahman S, D'Aiello A, Elkind R, Sakalian S, Fehn K, Wright K, Abreu M, Townsend-Nugent L, Chambers N, Mathew R, Binakaj D, Nelson R, Palesi C, Paroder M, Uehlinger J, Wang Y, Shi Y, Zang X, Wang H, Nishimura C, Ren X, Steidl UG, Gritsman K, Janakiram M, Kornblum N, Derman O, Mantzaris I, Shastri A, Bartash R, Puius Y, McCort M, Goldfinger M, Bachier-Rodriguez L, Verma A, Braunschweig I, Sica RA. Patterns of leukocyte recovery predict infectious complications after CD19 CAR-T cell therapy in a real-world setting. Stem Cell Investig. 2021 Sep 6; 8:18.

Boutet M, Benet Z, Guillen E, Koch C, M'Homa Soudja S, Delahaye F, Fooksman D, Lauvau G. Memory CD8+ T cells mediate early pathogen-specific protection via localized delivery of chemokines and IFNγ to clusters of monocytes. Sci Adv. 2021 Sep 3; 7(36):eabf9975.

 Barbaro JM, Cuervo AM, Berman JW. HIV Increases the Inhibitory Impact of Morphine and Antiretrovirals on Autophagy in Primary Human Macrophages: Contributions to Neuropathogenesis. Cells. 2021 Aug 24; 10(9):2183.

 Maron MI, Lehman SM, Gayatri S, DeAngelo JD, Hegde S, Lorton BM, Sun Y, Bai DL, Sidoli S, Gupta V, Marunde MR, Bone JR, Sun ZW, Bedford MT, Shabanowitz J, Chen H, Hunt DF, Shechter D. Independent transcriptomic and proteomic regulation by type I and II protein arginine methyltransferases. iScience. 2021 Aug 11; 24(9):102971.

Prieto C, Nguyen DTT, Liu Z, Wheat J, Perez A, Gourkanti S, Chou T, Barin E, Velleca A, Rohwetter T, Chow A, Taggart J, Savino AM, Hoskova K, Dhodapkar M, Schurer A, Barlowe TS, Vu LP, Leslie C, Steidl U, Rabadan R, Kharas MG. Transcriptional control of CBX5 by the RNA binding proteins RBMX and RBMXL1 maintains chromatin state in myeloid leukemia. Nat Cancer. 2021 Jul; 2:741-757.

 Wheat JC, Steidl U. Gene expression at a single-molecule level: implications for myelodysplastic syndromes and acute myeloid leukemia. Blood. 2021 Aug 26; 138(8):625-636.

 Bains H, Singh R. Isolation of autophagic fractions from mouse liver for biochemical analyses. STAR Protoc. 2021 Aug 12; 2(3):100730.

 Kaugars K, Dardick J, de Oliveira AP, Weiss KA, Lukose R, Kim J, Leung L, Rajagopalan S, Wolin S, Akabas L, Knipe DM, Bajic G, Jacobs WR Jr. A recombinant herpes virus expressing influenza hemagglutinin confers protection and induces antibody-dependent cellular cytotoxicity. Proc Natl Acad Sci U S A. 2021 Aug 24; 118(34):e2110714118.

Kim AS, Kafai NM, Winkler ES, Gilliland TC Jr, Cottle EL, Earnest JT, Jethva PN, Kaplonek P, Shah AP, Fong RH, Davidson E, Malonis RJ, Quiroz JA, Williamson LE, Vang L, Mack M, Crowe JE Jr, Doranz BJ, Lai JR, Alter G, Gross ML, Klimstra WB, Fremont DH, Diamond MS. Pan-protective anti-alphavirus human antibodies target a conserved E1 protein epitope. Cell. 2021 Aug 19; 184(17):4414-4429.e19.

Gelb DJ, Kraakevik J, Safdieh JE, Agarwal S, Odia Y, Govindarajan R, Quick A, Soni M; AAN Undergraduate Education Subcommittee (UES), Bickel J, Gamaldo C, Hannon P, Hatch HAM, Hernandez C, Merlin LR, Noble JM, Reyes-Iglesias Y, Marie E Salas R, Sandness DJ, Treat L; AAN Education Committee, Benameur K, Brown RD Jr, DeLuca GC, Garg N, Goldstein LB, Gutmann L, Henchcliffe C, Hessler A, Jordan JT, Kilgore SM, Khan J, Levin KH, Mohile NA, Nevel KS, Roberts K, Said RR, Simpson EP, Sirven JI, Smith AG, Southerland AM, Wilson RB. Contemporary Neuroscience Core Curriculum for Medical Schools. Neurology. 2021 Aug 16:10.1212/WNL.0000000000012664. doi: 10.1212/WNL.0000000000012664. Epub ahead of print.

Ely BA, Nguyen TNB, Tobe RH, Walker AM, Gabbay V. Multimodal Investigations of Reward Circuitry and Anhedonia in Adolescent Depression. Front Psychiatry. 2021 Jul 23; 12:678709.

Wontakal SN, Bortz RH 3rd, Lin WW, Gendlina I, Fox AS, Hod EA, Chandran K, Prystowsky MB, Weiss LM, Spitalnik SL. Approaching the Interpretation of Discordances in SARS-CoV-2 Testing. Open Forum Infect Dis. 2021 Mar 23; 8(7):ofab144.

Wei Y, Ren X, Galbo PM Jr, Moerdler S, Wang H, Sica RA, Etemad-Gilbertson B, Shi L, Zhu L, Tang X, Lin Q, Peng M, Guan F, Zheng D, Chinai JM, Zang X. KIR3DL3-HHLA2 is a human immunosuppressive pathway and a therapeutic target. Sci Immunol. 2021 Jul 9; 6(61):eabf9792.

Cai D, Khor S. Hypothalamic microinflammation. Handb Clin Neurol. 2021; 181:311-322.

Tang LTH, Trivedi M, Freund J, Salazar CJ, Rahman M, Ramirez-Suarez NJ, Lee G, Wang Y, Grant BD, Bülow HE. The CATP-8/P5A-type ATPase functions in multiple pathways during neuronal patterning. PLoS Genet. 2021 Jul 1; 17(7):e1009475.

 Krause GJ, Cuervo AM. Assessment of mammalian endosomal microautophagy. Methods Cell Biol. 2021; 164:167-185.

Akman O, Briggs SW, Mowrey WB, Moshé SL, Galanopoulou AS. Antiepileptogenic effects of rapamycin in a model of infantile spasms due to structural lesions. Epilepsia. 2021 Jul 2. doi: 10.1111/epi.16975. Epub ahead of print.

Visciano ML, Mahant AM, Pierce C, Hunte R, Herold BC. Antibodies Elicited in Response to a Single Cycle Glycoprotein D Deletion Viral Vaccine Candidate Bind C1q and Activate Complement Mediated Neutralization and Cytolysis. Viruses. 2021 Jun 30; 13(7):1284.

Sharma VP, Williams J, Leung E, Sanders J, Eddy R, Castracane J, Oktay MH, Entenberg D, Condeelis JS. SUN-MKL1 Crosstalk Regulates Nuclear Deformation and Fast Motility of Breast Carcinoma Cells in Fibrillar ECM Microenvironment. Cells. 2021 Jun 19; 10(6):1549.

MacArthur RB, Bentur OS, MacArthur IC, Bartoo AS, Capozzi DL, Christensen JA, Johnson AL, Patel K, Coller BS. CTSA pharmacies: Contribution to research and public health during the COVID-19 pandemic. J Clin Transl Sci. 2021 Feb 18; 5(1):e108.

 Wheat JC, Steidl U. Gene Expression at a Single Molecule Level: Implications for MDS and AML. Blood. 2021 Jun 22:blood.2019004261. doi: 10.1182/blood.2019004261. Epub ahead of print.

Bertho S, Kaufman O, Lee K, Santos-Ledo A, Dellal D, Marlow FL. A transgenic system for targeted ablation of reproductive and maternal-effect genes. Development. 2021 Jun 15; 148(12):dev198010. doi: 10.1242/dev.198010. Epub 2021 Jun 18.

 Hatch HAM, O'Neil MH, Marion RW, Secombe J, Shulman LH. Caregiver-reported characteristics of children diagnosed with pathogenic variants in KDM5C. Am J Med Genet A. 2021 Jun 4. doi: 10.1002/ajmg.a.62381. Epub ahead of print.

 Biswas J, Li W, Singer RH, Coleman RA. Imaging Organization of RNA Processing within the Nucleus. Cold Spring Harb Perspect Biol. 2021 Jun 14:a039453. doi: 10.1101/cshperspect.a039453. Epub ahead of print.

 Schwenger E, Steidl U. An evolutionary approach to clonally complex hematologic disorders. Blood Cancer Discov. 2021 May; 2(3):201-215.

Tomita T, Mukhopadhyay D, Han B, Yakubu R, Tu V, Mayoral J, Sugi T, Ma Y, Saeij JPJ, Weiss LM. Toxoplasma gondii Matrix Antigen 1 Is a Secreted Immunomodulatory Effector. mBio. 2021 May 18; 12(3):e00603-21.

 Moore E, Reynolds JA, Davidson A, Gallucci S, Morel L, Rao DA, Young HA, Putterman C. Promise and complexity of lupus mouse models. Nat Immunol. 2021 May 10. doi: 10.1038/s41590-021-00914-4. Epub ahead of print.

Cheney L, Barbaro JM, Berman JW. Antiretroviral Drugs Impact Autophagy with Toxic Outcomes. Cells. 2021 Apr 15; 10(4):909.

 Firestone RS, Feng M, Basu I, Peregrina K, Augenlicht LH, Schramm VL. Transition state analogue of MTAP extends lifespan of APC^Min/+ mice. Sci Rep. 2021 Apr 23; 11(1):8844.

 Bortz RH 3rd, Florez C, Laudermilch E, Wirchnianski AS, Lasso G, Malonis RJ, Georgiev GI, Vergnolle O, Herrera NG, Morano NC, Campbell ST, Orner EP, Mengotto A, Dieterle ME, Fels JM, Haslwanter D, Jangra RK, Celikgil A, Kimmel D, Lee JH, Mariano MC, Nakouzi A, Quiroz J, Rivera J, Szymczak WA, Tong K, Barnhill J, Forsell MNE, Ahlm C, Stein DT, Pirofski LA, Goldstein DY, Garforth SJ, Almo SC, Daily JP, Prystowsky MB, Faix JD, Fox AS, Weiss LM, Lai JR, Chandran K. Single-Dilution COVID-19 Antibody Test with Qualitative and Quantitative Readouts. mSphere.2021 Apr 21; 6(2):e00224-21.

 Weinreb JT, Gupta V, Sharvit E, Weil R, Bowman TV. Ddx41 inhibition of DNA damage signaling permits erythroid progenitor expansion in zebrafish. Haematologica. 2021 Mar 25. doi: 10.3324/haematol.2020.257246. Epub ahead of print.

 Zahalka AH, Brodin NP, Maryanovich M, Wang X, Watts KL, Pinho S, Guha C, Frenette PS. Using CT-guided stereotactic prostate radiation therapy (CT-SPRT) to assess sustained murine prostate ablation. Sci Rep. 2021 Mar 22; 11(1):6571.

 Hatch HA, Belalcazar HM, Marshall OJ, Secombe J. A KDM5-Prospero transcriptional axis functions during early neurodevelopment to regulate mushroom body formation. Elife. 2021 Mar 17; 10:e63886.

 León-Rivera R, Veenstra M, Donoso M, Tell E, Eugenin EA, Morgello S, Berman JW. Central Nervous System (CNS) Viral Seeding by Mature Monocytes and Potential Therapies To Reduce CNS Viral Reservoirs in the cART Era. mBio. 2021 Mar 16; 12(2):e03633-20.

 Sweeney JM, Barouqa M, Krause GJ, Gonzalez-Lugo JD, Rahman S, Gil MR. Low ADAMTS13 Activity Correlates with Increased Mortality in COVID-19 Patients. TH Open. 2021 Mar 9; 5(1):e89-e103.

Ueda K, Kumari R, Schwenger E, Wheat JC, Bohorquez O, Narayanagari SR, Taylor SJ, Carvajal LA, Pradhan K, Bartholdy B, Todorova TI, Goto H, Sun D, Chen J, Shan J, Song Y, Montagna C, Xiong S, Lozano G, Pellagatti A, Boultwood J, Verma A, Steidl U. MDMX acts as a pervasive preleukemic-to-acute myeloid leukemia transition mechanism. Cancer Cell. 2021 Mar 3:S1535-6108(21)00108-2. doi: 10.1016/j.ccell.2021.02.006. Epub ahead of print.

 Weinreb JT, Ghazale N, Pradhan K, Gupta V, Potts KS, Tricomi B, Daniels NJ, Padgett RA, De Oliveira S, Verma A, Bowman TV. Excessive R-loops trigger an inflammatory cascade leading to increased HSPC production. Dev Cell. 2021 Feb 23:S1534-5807(21)00117-9. doi: 10.1016/j.devcel.2021.02.006. Epub ahead of print.

Zhang W, Acuna-Villaorduna A, Kuan K, Gupta S, Hu S, Ohaegbulam K, Albanese J, Kaumaya M, Levy R, Hwang RR, Zang X, Lin J, Liu Q, Maitra R, Goel S. B7-H3 and PD-L1 Expression Are Prognostic Biomarkers in a Multi-racial Cohort of Patients with Colorectal Cancer. Clin Colorectal Cancer. 2021 Feb 19:S1533-0028(21)00016-5.

 MacArthur IC, Dawlaty MM. TET Enzymes and 5-Hydroxymethylcytosine in Neural Progenitor Cell Biology and Neurodevelopment. Front Cell Dev Biol. 2021 Feb 18; 9:645335.

 Spitz AZ, Zacharioudakis E, Reyna DE, Garner TP, Gavathiotis E. Eltrombopag directly inhibits BAX and prevents cell death. Nat Commun. 2021 Feb 18; 12(1):1134.

Fels JM, Bortz RH 3rd, Alkutkar T, Mittler E, Jangra RK, Spence JS, Chandran K. A Glycoprotein Mutation That Emerged during the 2013-2016 Ebola Virus Epidemic Alters Proteolysis and Accelerates Membrane Fusion. mBio. 2021 Feb 16; 12(1):e03616-20.

Yoon HA, Bartash R, Gendlina I, Rivera J, Nakouzi A, Bortz 3rd RH, Wirchnianski AS, Paroder M, Fehn K, Serrano-Rahman L, Babb R, Sarwar UN, Haslwanter D, Laudermilch E, Florez C, Dieterle ME, Jangra RK, Fels JM, Tong K, Mariano MC, Vergnolle O, Georgiev GI, Herrera NG, Malonis RJ, Quiroz JA, Morano NC, Krause GJ, Sweeney JM, Cowman K, Allen SA, Annam J, Applebaum A, Barboto D, Khokhar A, Lally BJ, Lee A, Lee M, Malaviya A, Sample R, Yang XA, Li Y, Ruiz RE, Thota R, Barnhill J, Goldstein DY, Uehlinger J, Garforth SJ, Almo SC, Lai JR, Reyes Gil M, Fox AS, Chandran K, Wang T, Daily JP, Pirofski LA. Treatment of Severe COVID-19 with Convalescent Plasma in Bronx, NYC. JCI Insight. 2021 Jan 21:142270. doi: 10.1172/jci.insight.142270. Epub ahead of print.

 Hasenoehrl EJ, Wiggins TJ, Berney M. Bioenergetic Inhibitors: Antibiotic Efficacy and Mechanisms of Action in Mycobacterium tuberculosis. Front Cell Infect Microbiol. 2021 Jan 11; 10:611683.

 Gil N, Shrestha R, Fiser A. Estimating the accuracy of pharmacophore-based detection of cognate receptor-ligand pairs in the immunoglobulin superfamily. Proteins. 2021 Jan 23. doi: 10.1002/prot.26046. Epub ahead of print.

Herrera NG, Morano NC, Celikgil A, Georgiev GI, Malonis RJ, Lee JH, Tong K, Vergnolle O, Massimi AB, Yen LY, Noble AJ, Kopylov M, Bonanno JB, Garrett- Thomson SC, Hayes DB, Bortz RH 3rd, Wirchnianski AS, Florez C, Laudermilch E, Haslwanter D, Fels JM, Dieterle ME, Jangra RK, Barnhill J, Mengotto A, Kimmel D, Daily JP, Pirofski LA, Chandran K, Brenowitz M, Garforth SJ, Eng ET, Lai JR, Almo SC. Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis. ACS Omega. 2020 Dec 21; 6(1):85-102.

Choudhuri J, Carter J, Nelson R, Skalina K, Osterbur-Badhey M, Johnston A, Goldstein D, Paroder M, Szymanski J. SARS-CoV-2 PCR cycle threshold at hospital admission associated with patient mortality. PLoS One. 2020 Dec 31; 15(12):e0244777.

 Mayoral J, Tomita T, Tu V, Aguilan JT, Sidoli S, Weiss LM. Toxoplasma gondii PPM3C, a secreted protein phosphatase, affects parasitophorous vacuole effector export. PLoS Pathog. 2020 Dec 28; 16(12):e1008771.

 Iqbal NJ, Schwartz GJ, Zhao H, Zhu L, Chua S Jr. Cyclin-dependent kinase 4/6 inhibitors require an arcuate to paraventricular hypothalamus melanocortin circuit to treat diet-induced obesity. Am J Physiol Endocrinol Metab. 2020 Dec 28. doi: 10.1152/ajpendo.00386.2020. Epub ahead of print.

 Gil N, Lipton M, Fleysher R. Registration Quality Filtering Improves Robustness of Voxel-Wise Analyses to the Choice of Brain Template. Neuroimage. 2020 Dec 15:117657. doi: 10.1016/j.neuroimage.2020.117657. Epub ahead of print.

Wang Z, Huang Y, He Y, Khor S, Zhong X, Xiao J, Ye Q, Li X. Myocardial protection by heparin-based coacervate of FGF10. Bioact Mater. 2020 Dec 10; 6(7):1867-1877.

 Willcockson MA*, Healton SE*, Weiss CN*, Bartholdy BA*, Botbol Y, Mishra LN, Sidhwani DS, Wilson TJ, Pinto HB, Maron MI, Skalina KA, Toro LN, Zhao J, Lee CH, Hou H, Yusufova N, Meydan C, Osunsade A, David Y, Cesarman E, Melnick AM, Sidoli S, Garcia BA, Edelmann W, Macian F, Skoultchi AI. H1 histones control the epigenetic landscape by local chromatin compaction. Nature. 2020 Dec 9. doi: 10.1038/s41586-020-3032-z. Epub ahead of print. (*contributed equally)

Lee BS, Hards K, Engelhart CA, Hasenoehrl EJ, Kalia NP, Mackenzie JS, Sviriaeva E, Chong SMS, Manimekalai MSS, Koh VH, Chan J, Xu J, Alonso S, Miller MJ, Steyn AJC, Grüber G, Schnappinger D, Berney M, Cook GM, Moraski GC, Pethe K. Dual inhibition of the terminal oxidases eradicates antibiotic-tolerant Mycobacterium tuberculosis. EMBO Mol Med. 2020 Dec 7:e13207. doi: 10.15252/emmm.202013207. Epub ahead of print.

 Stauber J, Greally J, Steidl U. Preleukemic and Leukemic Evolution at the Stem Cell Level. Blood. 2020 Dec 4:blood.2019004397. doi: 10.1182/blood.2019004397. Epub ahead of print.

 Khor S, Cai D. Control of lifespan and survival by Drosophila NF-κB signaling through neuroendocrine cells and neuroblasts. Aging (Albany NY). 2020 Nov 24;12. doi: 10.18632/aging.104196. Epub ahead of print.

 Nishimura CD, Pulanco MC, Cui W, Lu L, Zang X. PD-L1 and B7-1 Cis- Interaction: New Mechanisms in Immune Checkpoints and Immunotherapies. Trends Mol Med. 2020 Nov 13: S1471-4914(20)30266-5. doi: 10.1016/j.molmed.2020.10.004. Epub ahead of print.

Niu M, Morsey B, Lamberty BG, Emanuel K, Yu F, León-Rivera R, Berman JW, Gaskill PJ, Matt SM, Ciborowski PS, Fox HS. Methamphetamine Increases the Proportion of SIV-Infected Microglia/Macrophages, Alters Metabolic Pathways, and Elevates Cell Death Pathways: A Single-Cell Analysis. Viruses. 2020 Nov 12; 12(11):E1297.

 Skalina KA, Goldstein DY, Sulail J, Hahm E, Narlieva M, Szymczak W, Fox AS. Extended storage of SARS-CoV-2 nasopharyngeal swabs does not negatively impact results of molecular-based testing across three clinical platforms. J Clin Pathol. 2020 Nov 3:jclinpath-2020-206738. doi: 10.1136/jclinpath-2020-206738. Epub ahead of print.

Powell Gray B, Song X, Hsu DS, Kratschmer C, Levy M, Barry AP, Sullenger BA. An Aptamer for Broad Cancer Targeting and Therapy. Cancers (Basel). 2020 Oct 31; 12(11):E3217.

Xu S, Yang H, Menon V, Lemire AL, Wang L, Henry FE, Turaga SC, Sternson SM. Behavioral state coding by molecularly defined paraventricular hypothalamic cell type ensembles. Science. 2020 Oct 16; 370(6514):eabb2494.

Fraint E, Ulloa BA, Feliz Norberto M, Potts KS, Bowman TV. Advances in preclinical hematopoietic stem cell models and possible implications for improving therapeutic transplantation. Stem Cells Transl Med. 2020 Oct 15. doi: 10.1002/sctm.20-0294. Epub ahead of print.

 Khan S, Hauptman R, Kelly L. Engineering the Microbiome to Prevent Adverse Events: Challenges and Opportunities. Annu Rev Pharmacol Toxicol. 2020 Oct 13. doi: 10.1146/annurev-pharmtox-031620-031509. Epub ahead of print.

 Pierce CA, Preston-Hurlburt P, Dai Y, Aschner CB, Cheshenko N, Galen B, Garforth SJ, Herrera NG, Jangra RK, Morano NC, Orner E, Sy S, Chandran K, Dziura J, Almo SC, Ring A, Keller MJ, Herold KC, Herold BC. Immune responses to SARS-CoV-2 infection in hospitalized pediatric and adult patients. Sci Transl Med. 2020 Sep 21:eabd5487. doi: 10.1126/scitranslmed.abd5487. Epub ahead of print.

Romano S, Kaufman OH, Marlow FL. Loss of dmrt1 restores female fates in the absence of cyp19a1a but not rbpms2a/b. Development. 2020 Sep 7:dev.190942. doi: 10.1242/dev.190942. Epub ahead of print.

 Piqué DG, Greally JM, Mar JC. Identification of a novel subgroup of endometrial cancer patients with loss of thyroid hormone receptor beta expression and improved survival. BMC Cancer. 2020 Sep 7; 20(1):857.

 Mike EV, Laroche D. Preserving Vision in the COVID-19 Pandemic: Focus on Health Equity. Clin Ophthalmol. 2020 Jul 22; 14:2073-2077.

 Moore E, Huang MW, Jain S, Chalmers SA, Macian F, Putterman C. The T Cell Receptor Repertoire in Neuropsychiatric Systemic Lupus Erythematosus. Front Immunol. 2020 Jul 17; 11:1476.

 Biswas J, Rahman R, Gupta V, Rosbash M, Singer RH. MS2-TRIBE Evaluates Both Protein-RNA Interactions and Nuclear Organization of Transcription by RNA Editing. iScience. 2020 Jun 28; 23(7):101318.

Szymczak WA, Goldstein DY, Orner EP, Fecher RA, Yokoda RT, Skalina KA, Narlieva M, Gendlina I, Fox AS. Utility of Stool PCR for the Diagnosis of COVID-19: Comparison of Two Commercial Platforms. J Clin Microbiol. 2020 Jul 1:JCM.01369-20. doi: 10.1128/JCM.01369-20. Epub ahead of print.

Bortz RH 3rd, Wong AC, Grodus MG, Recht HS, Pulanco MC, Lasso G, Anthony SJ, Mittler E, Jangra RK, Chandran K. A virion-based assay for glycoprotein thermostability reveals key determinants of filovirus entry and its inhibition. J Virol. 2020 Jul 1:JVI.00336-20. doi: 10.1128/JVI.00336-20. Epub ahead of print.

Wheat JC, Sella Y, Willcockson M, Skoultchi AI, Bergman A, Singer RH, Steidl U. Single-molecule imaging of transcription dynamics in somatic stem cells. Nature. 2020 Jun 24. doi: 10.1038/s41586-020-2432-4. Epub ahead of print.

Wec AZ, Wrapp D, Herbert AS, Maurer DP, Haslwanter D, Sakharkar M, Jangra RK, Dieterle ME, Lilov A, Huang D, Tse LV, Johnson NV, Hsieh CL, Wang N, Nett JH, Champney E, Burnina I, Brown M, Lin S, Sinclair M, Johnson C, Pudi S, Bortz R 3rd, Wirchnianski AS, Laudermilch E, Florez C, Fels JM, O'Brien CM, Graham BS, Nemazee D, Burton DR, Baric RS, Voss JE, Chandran K, Dye JM, McLellan JS, Walker LM. Broad neutralization of SARS-related viruses by human monoclonal antibodies. Science. 2020 Jun 15:eabc7424. doi: 10.1126/science.abc7424. Epub ahead of print.

 Moore E, Putterman C. Are lupus animal models useful for understanding and developing new therapies for human SLE? J Autoimmun. 2020 Jun 10:102490. doi: 10.1016/j.jaut.2020.102490. Epub ahead of print.

Burn Aschner C, Pierce C, Knipe DM, Herold BC. Vaccination Route as a Determinant of Protective Antibody Responses against Herpes Simplex Virus. Vaccines (Basel). 2020 Jun 5; 8(2):E277.

 Healton SE, Pinto HD, Mishra LN, Hamilton GA, Wheat JC, Swist-Rosowska K, Shukeir N, Dou Y, Steidl U, Jenuwein T, Gamble MJ, Skoultchi AI. H1 linker histones silence repetitive elements by promoting both histone H3K9 methylation and chromatin compaction. Proc Natl Acad Sci U S A. 2020 Jun 8:201920725. doi: 10.1073/pnas.1920725117. Epub ahead of print.

 Johnston AD, Abdulrazak A, Sato H, Maqbool SB, Suzuki M, Greally JM, Simões- Pires CA. A Cellular Stress Response Induced by the CRISPR-dCas9 Activation System Is Not Heritable Through Cell Divisions. CRISPR J. 2020 Jun; 3(3):188-197.

Dieterle ME, Haslwanter D, Bortz RH 3rd, Wirchnianski AS, Lasso G, Vergnolle O, Abbasi SA, Fels JM, Laudermilch E, Florez C, Mengotto A, Kimmel D, Malonis RJ, Georgiev G, Quiroz J, Barnhill J, Pirofski LA, Daily JP, Dye JM, Lai JR, Herbert AS, Chandran K, Jangra RK. A replication-competent vesicular stomatitis virus for studies of SARS-CoV-2 spike-mediated cell entry and its inhibition. bioRxiv [Preprint]. 2020 May 20:2020.05.20.105247. doi: 10.1101/2020.05.20.105247.

 Zahalka AH, Fram E, Lin W, Mohn L, Frenette PS, Agalliu I, Watts KL. Use of beta-blocker types and risk of incident prostate cancer in a multiethnic population. Urol Oncol. 2020 Apr 16. pii: S1078-1439(20)30130-7. doi: 10.1016/j.urolonc.2020.03.024. [Epub ahead of print].

 Ramsey NLM, Visciano M, Hunte R, Loh LN, Aschner CB, Jacobs WR Jr, Herold BC. A single-cycle glycoprotein D deletion viral vaccine candidate, ΔgD-2, elicits polyfunctional antibodies that protect against ocular herpes simplex virus. J Virol. 2020 Apr 15. pii: JVI.00335-20. doi: 10.1128/JVI.00335-20. [Epub ahead of print].

Brenner S, Berger F, Rao L, Nicholas MP, Gennerich A. Force production of human cytoplasmic dynein is limited by its processivity. Sci Adv. 2020 Apr 8; 6(15):eaaz4295.

Zhao H, Iqbal NJ, Sukrithan V, Nicholas C, Xue Y, Yu C, Locker J, Zou J, Schwartz EL, Zhu L. Targeted inhibition of the E3 ligase SCF-Skp2/Cks1 has antitumor activity in RB1-deficient human and mouse small cell lung cancer (SCLC). Cancer Res. 2020 Apr 7. pii: canres.2400.2019. doi: 10.1158/0008-5472.CAN-19-2400. [Epub ahead of print].

Rastogi D, Johnston AD, Nico J, Loh LN, Jorge Y, Suzuki M, Macian F, Greally JM. Functional Genomics of the Pediatric Obese Asthma Phenotype Reveal Enrichment of Rho-GTPase Pathways. Am J Respir Crit Care Med. 2020 Apr 7. doi: 10.1164/rccm.201906-1199OC. [Epub ahead of print].

Guo QQ, Wang SS, Zhang SS, Xu HD, Li XM, Guan Y, Yi F, Zhou TT, Jiang B, Bai N, Ma MT, Wang Z, Feng YL, Guo WD, Wu X, Zhao GF, Fan GJ, Zhang SP, Wang CG, Cao LY, O'Rourke BP, Liu SH, Wang PY, Han S, Song XY, Cao L. ATM-CHK2-Beclin 1 axis promotes autophagy to maintain ROS homeostasis under oxidative stress. EMBO J. 2020 Mar 18:e103111. doi: 10.15252/embj.2019103111. [Epub ahead of print]

Makinde HM, Winter DR, Procissi D, Mike EV, Stock AD, Kando MJ, Gadhvi GT, Droho S, Bloomfield CL, Dominguez ST, Mayr MG, Lavine JA, Putterman C, Cuda CM. A Novel Microglia-Specific Transcriptional Signature Correlates With Behavioral Deficits in Neuropsychiatric Lupus. Front Immunol. 2020 Feb 26; 11:230.

 Mayoral J, Shamamian P Jr, Weiss LM. In Vitro Characterization of Protein Effector Export in the Bradyzoite Stage of Toxoplasma gondii. mBio. 2020 Mar 10; 11(2). pii: e00046-20.

 Biswas J, Nunez L, Das S, Yoon YJ, Eliscovich C, Singer RH. Zipcode Binding Protein 1 (ZBP1; IGF2BP1): A Model for Sequence-Specific RNA Regulation. Cold Spring Harb Symp Quant Biol. 2020 Feb 21. pii: 039396. doi: 10.1101/sqb.2019.84.039396. [Epub ahead of print].

Tu V, Mayoral J, Yakubu RR, Tomita T, Sugi T, Han B, Williams T, Ma Y, Weiss LM. MAG2, a Toxoplasma gondii Bradyzoite Stage-Specific Cyst Matrix Protein. mSphere. 2020 Feb 19; 5(1). pii: e00100-20.

 Barahman M, Alanis L, DiNorcia J, Moriarty JM, McWilliams JP. Hepatic artery stenosis angioplasty and implantation of Wingspan neurovascular stent: A case report and discussion of stenting in tortuous vessels. World J Gastroenterol. 2020 Jan 28; 26(4):448-455.

Wang Z, Khor S, Cai D. Regulation of muscle and metabolic physiology by hypothalamic erythropoietin independently of its peripheral action. Mol Metab. 2020 Feb; 32:56-68.

Drosopoulos WC, Vierra DA, Kenworthy CA, Coleman RA, Schildkraut CL. Dynamic Assembly and Disassembly of the Human DNA Polymerase δ Holoenzyme on the Genome In Vivo. Cell Rep. 2020 Feb 4; 30(5):1329-1341.e5.

Tu V, Tomita T, Sugi T, Mayoral J, Han B, Yakubu RR, Williams T, Horta A, Ma Y, Weiss LM. The Toxoplasma gondii Cyst Wall Interactome. mBio. 2020 Feb 4; 11(1). pii: e02699-19.

Fajardo JE, Shrestha R, Gil N, Belsom A, Crivelli SN, Czaplewski C, Fidelis K, Grudinin S, Karasikov M, Karczyńska AS, Kryshtafovych A, Leitner A, Liwo A, Lubecka EA, Monastyrskyy B, Pagès G, Rappsilber J, Sieradzan AK, Sikorska C, Trabjerg E, Fiser A. Assessment of chemical-crosslink-assisted protein structure modeling in CASP13. Proteins. 2020 Mar; 88(3):540.

 Hunter LE, Freudenberg-Hua Y, Davies P, Kim M, Lipton RB, Stewart WF, Srinivasan P, Hu S, Lipton ML. Associations of Apolipoprotein E ε4 Genotype and Ball Heading With Verbal Memory in Amateur Soccer Players. JAMA Neurol. 2020 Jan 27. doi: 10.1001/jamaneurol.2019.4828. [Epub ahead of print].

 Zahalka AH, Frenette PS. Nerves in cancer. Nat Rev Cancer. 2020 Jan 23. doi: 10.1038/s41568-019-0237-2. [Epub ahead of print].