MP faculty publications: January-February 2018

• 1. Learning-dependent chromatin remodeling highlights noncoding regulatory regions linked to autism. WKoberstein JN, Poplawski SG, Wimmer ME, Porcari G, Kao C, Gomes B, Risso D, Hakonarson H, Zhang NR, Schultz RT,Abel T, Peixoto L.
  Sci Signal. 2018 Jan 16;11(513). pii: eaan6500. doi: 10.1126/scisignal.aan6500.

• 2. Calcium channel blockers as drug repurposing candidates for gestational diabetes: Mining large scale genomic and electronic health records data to repurpose medications. Goldstein JA, Bastarache LA, Denny JC, Roden DM, Pulley JM, Aronoff DM.
  Pharmacol Res. 2018 Feb 12. pii: S1043-6618(17)31008-3. doi: 10.1016/j.phrs.2018.02.013. [Epub ahead of print]

• 3. Examination of Signatures of Recent Positive Selection on Genes Involved in Human Sialic Acid Biology. Moon JM, Aronoff DM,Capra JA, Abbot P, Rokas A.
  G3 (Bethesda). 2018 Feb 21. pii: g3.200035.2018. doi: 10.1534/g3.118.200035. [Epub ahead of print]

• 4. Historical and contemporary features of infections due to Clostridium novyi. Aronoff DM, Kazanjian PH.
  Anaerobe. 2018 Feb 20;50:80-84. doi: 10.1016/j.anaerobe.2017.12.012. [Epub ahead of print] Review.

• 5. Evolutionary Genetics of Cytoplasmic Incompatibility Genes cifA and cifB in Prophage WO of Wolbachia. Lindsey ARI, Rice DW, Bordenstein SR, Brooks AW, Bordenstein SR, Newton ILG.
  Genome Biol Evol. 2018 Feb 1;10(2):434-451. doi: 10.1093/gbe/evy012.

• 6. Glucagon-like peptide 1 signaling inhibits allergen-induced lung IL-33 release and reduces group 2 innate lymphoid cell cytokine production in vivo. Toki S, Goleniewska K, Reiss S, Zhang J, Bloodworth MH, Stier MT, Zhou W, Newcomb DC, Ware LB, Stanwood GD, Galli A, Boyd KL, Niswender KD, Peebles RS Jr.
  J Allergy Clin Immunol. 2018 Jan 10. pii: S0091-6749(18)30027-7. doi: 10.1016/j.jaci.2017.11.043. [Epub ahead of print]

• 7. Pharmacokinetics, Tissue Localization, Toxicity, and Treatment Efficacy in the First Small Animal (Rabbit) Model of Intra-Arterial Chemotherapy for Retinoblastoma. Daniels AB, Froehler MT, Pierce JM, Nunnally AH, Calcutt MW, Bridges TM, LaNeve DC, Williams PE, Boyd KL, Reyzer ML, Lindsley CW, Friedman DL, Richmond A.
  Invest Ophthalmol Vis Sci. 2018 Jan 1;59(1):446-454. doi: 10.1167/iovs.17-22302.

• 8. Phenome-wide association studies uncover a novel association of increased atrial fibrillation in males with systemic lupus erythematosus. Barnado A, Carroll RJ, Casey C, Wheless L, Denny JC, Crofford LJ.
  Arthritis Care Res (Hoboken). 2018 Feb 26. doi: 10.1002/acr.23553. [Epub ahead of print]

• 9. The Marburgvirus-Neutralizing Human Monoclonal Antibody MR191 Targets a Conserved Site to Block Virus Receptor Binding. King LB, Fusco ML, Flyak AI, Ilinykh PA, Huang K, Gunn B, Kirchdoerfer RN, Hastie KM, Sangha AK, Meiler J, Alter G, Bukreyev A, Crowe JE Jr., Saphire EO.
  Cell Host Microbe. 2018 Jan 10;23(1):101-109.e4. doi: 10.1016/j.chom.2017.12.003.

• 10. Integrating linear optimization with structural modeling to increase HIV neutralization breadth. Sevy AM, Panda S,Crowe JE Jr., Meiler J, Vorobeychik Y.
  PLoS Comput Biol. 2018 Feb 16;14(2):e1005999. doi: 10.1371/journal.pcbi.1005999. eCollection 2018 Feb.

• 11. Human antibody recognition of antigenic site IV on Pneumovirus fusion proteins. Mousa JJ, Binshtein E, Human S, Fong RH, Alvarado G, Doranz BJ, Moore ML, Ohi MD,Crowe JE Jr.
  PLoS Pathog. 2018 Feb 22;14(2):e1006837. doi: 10.1371/journal.ppat.1006837. eCollection 2018 Feb.

• 12. Mouse and Human Monoclonal Antibodies Protect against Infection by Multiple Genotypes of Japanese Encephalitis Virus. Fernandez E, Kose N, Edeling MA, Adhikari J, Sapparapu G, Lazarte SM, Nelson CA, Govero J, Gross ML, Fremont DH, Crowe JE Jr., Diamond MS.
  MBio. 2018 Feb 27;9(1). pii: e00008-18. doi: 10.1128/mBio.00008-18.

• 13. Nasopharyngeal Lactobacillus is associated with a reduced risk of childhood wheezing illnesses following acute respiratory syncytial virus infection in infancy. Rosas-Salazar C, Shilts MH, Tovchigrechko A, Schobel S, Chappell JD, Larkin EK, Gebretsadik T, Halpin RA, Nelson KE, Moore ML, Anderson LJ, Peebles RS Jr., Das SR,Hartert TV.
  J Allergy Clin Immunol. 2018 Jan 10. pii: S0091-6749(18)30031-9. doi: 10.1016/j.jaci.2017.10.049. [Epub ahead of print

• 14. Chronic kidney disease alters lipid trafficking and inflammatory responses in macrophages: effects of liver X receptor agonism. Kaseda R, Tsuchida Y, Yang HC, Yancey PG, Zhong J, Tao H, Bian A, Fogo AB, Linton MRF, Fazio S, Ikizler TA, Kon V.
  BMC Nephrol. 2018 Jan 27;19(1):17. doi: 10.1186/s12882-018-0814-8.

• 15. Kidney disease in the setting of HIV infection: conclusions from a Kidney Disease: Improving Global Outcomes (KDIGO) Controversies Conference. Swanepoel CR, Atta MG, D'Agati VD, Estrella MM, Fogo AB, Naicker S, Post FA, Wearne N, Winkler CA, Cheung M, Wheeler DC, Winkelmayer WC, Wyatt CM; Conference Participants.
  Kidney Int. 2018 Mar;93(3):545-559. doi: 10.1016/j.kint.2017.11.007. Epub 2018 Feb 3.

• 16. Revision of the International Society of Nephrology/Renal Pathology Society classification for lupus nephritis: clarification of definitions, and modified National Institutes of Health activity and chronicity indices. Bajema IM, Wilhelmus S, Alpers CE, Bruijn JA, Colvin RB, Cook HT, D'Agati VD, Ferrario F, Haas M, Jennette JC, Joh K, Nast CC, Noël LH, Rijnink EC, Roberts ISD, Seshan SV, Sethi S, Fogo AB.
  Kidney Int. 2018 Feb 16. pii: S0085-2538(17)30859-1. doi: 10.1016/j.kint.2017.11.023. [Epub ahead of print]

• 17. Factor XI contributes to myocardial ischemia-reperfusion injury in mice. Lorentz CU, Verbout NG, Cao Z, Liu L, Hinds MT, McCarty OJT, Ivanov I, Tucker EI,Gailani D, Gruber A.
  Blood Adv. 2018 Jan 23;2(2):85-88. doi: 10.1182/bloodadvances.2017004879. No abstract available.

• 18. Pharmacological blockade of ASCT2-dependent glutamine transport leads to antitumor efficacy in preclinical models. Schulte ML, Fu A, Zhao P, Li J, Geng L, Smith ST, Kondo J, Coffey RJ, Johnson MO, Rathmell JC, Sharick JT, Skala MC, Smith JA, Berlin J, Washington MK, Nickels ML, Manning HC.
  Nat Med. 2018 Feb;24(2):194-202. doi: 10.1038/nm.4464. Epub 2018 Jan 15.

• 19. Development and validation of an assay to analyze atazanavir in human hair via liquid chromatography/tandem mass spectrometry. Phung N, Kuncze K, Okochi H, Louie A, Benet LZ, Ofokotun I,Haas DW, Currier JS, Chawana TD, Sheth AN, Bacchetti P, Gandhi M, Horng H.
  Rapid Commun Mass Spectrom. 2018 Mar 15;32(5):431-441. doi: 10.1002/rcm.8058.

• 20. Killer cell immunoglobulin-like receptor 3DL1 variation modifies HLA-B*57 protection against HIV-1. Martin MP, Naranbhai V, Shea PR, Qi Y, Ramsuran V, Vince N, Gao X, Thomas R, Brumme ZL, Carlson JM, Wolinsky SM, Goedert JJ, Walker BD, Segal FP, Deeks SG, Haas DW, Migueles SA, Connors M, Michael N, Fellay J, Gostick E, Llewellyn-Lacey S, Price DA, Lafont BA, Pymm P, Saunders PM, Widjaja J, Wong SC, Vivian JP, Rossjohn J, Brooks AG, Carrington M.
  J Clin Invest. 2018 Feb 20. pii: 98463. doi: 10.1172/JCI98463. [Epub ahead of print]

• 21. Evidence of Cross-Regulation in Two Closely Related Pyruvate-Sensing Systems in Uropathogenic Escherichia coli. Steiner BD, Eberly AR, Hurst MN, Zhang EW, Green HD, Behr S, Jung K, Hadjifrangiskou M.
  J Membr Biol. 2018 Feb;251(1):65-74. doi: 10.1007/s00232-018-0014-2. Epub 2018 Jan 27.

• 22. Salt-bridge modulates differential calcium-mediated ligand binding to integrin α1- and α2-I domains. Brown KL, Banerjee S, Feigley A, Abe H, Blackwell TS, Pozzi A, Hudson BG, Zent R.
  Sci Rep. 2018 Feb 13;8(1):2916. doi: 10.1038/s41598-018-21231-1.

• 23. Generating Quantitative Cell Identity Labels with Marker Enrichment Modeling (MEM). Diggins KE, Gandelman JS, Roe CE, Irish JM.
  Curr Protoc Cytom. 2018 Jan 18;83:10.21.1-10.21.28. doi: 10.1002/cpcy.34.

• 24. Vaccine-induced antibody responses modify the association between T-cell immune responses and HIV-1 infection risk in HVTN 505. Fong Y, Shen X, Ashley VC, Deal A, Seaton KE, Yu C, Grant SP, Ferrari G, deCamp AC, Bailer RT, Koup RA, Montefiori D, Haynes BF, Sarzotti-Kelsoe M, Graham BS, Carpp LN, Hammer SM, Sobieszczyk M, Karuna S, Swann E, DeJesus E, Mulligan M, Frank I, Buchbinder S, Novak RM, McElrath MJ, Kalams S, Keefer M, Frahm NA, Janes HE, Gilbert PB, Tomaras GD.
  J Infect Dis. 2018 Jan 8. doi: 10.1093/infdis/jiy008. [Epub ahead of print]

• 25. The Role of Noncoding RNA Pseudouridylation in Nuclear Gene Expression Events. Zhao Y, Dunker W, Yu YT, Karijolich J.
  Front Bioeng Biotechnol. 2018 Feb 8;6:8. doi: 10.3389/fbioe.2018.00008. eCollection 2018. Review.

• 26. Bruton's Tyrosine Kinase Is Not Essential for B Cell Survival beyond Early Developmental Stages. Nyhoff LE, Clark ES, Barron BL, Bonami RH, Khan WN, Kendall PL.
  J Immunol. 2018 Feb 26. pii: ji1701489. doi: 10.4049/jimmunol.1701489. [Epub ahead of print]

• 27. ERα-mediated nuclear sequestration of RSK2 is required for ER+ breast cancer tumorigenesis. Ludwik KA, McDonald OG,Brenin DR, Lannigan DA.
  Cancer Res. 2018 Jan 19. pii: canres.2063.2017. doi: 10.1158/0008-5472.CAN-17-2063. [Epub ahead of print]

• 28. SJS/TEN 2017: Building Multidisciplinary Networks to Drive Science and Translation. White KD, Abe R, Ardern-Jones M, Beachkofsky T, Bouchard C, Carleton B, Chodosh J, Cibotti R, Davis R, Denny JC, Dodiuk-Gad RP, Ergen EN, Goldman JL, Holmes JH 4th, Hung SI, Lacouture ME, Lehloenya RJ, Mallal S, Manolio TA, Micheletti RG, Mitchell CM, Mockenhaupt M, Ostrov DA, Pavlos R, Pirmohamed M, Pope E, Redwood A, Rosenbach M, Rosenblum MD, Roujeau JC, Saavedra AP, Saeed HN, Struewing JP, Sueki H, Sukasem C, Sung C, Trubiano JA, Weintraub J, Wheatley LM, Williams KB, Worley B, Chung WH, Shear NH, Phillips EJ.
  J Allergy Clin Immunol Pract. 2018 Jan - Feb;6(1):38-69. doi: 10.1016/j.jaip.2017.11.023. Review.

• 29. Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 159 individuals from the Worcester region of the Western Cape province of South Africa. Grifoni A, Sidney J, Carpenter C, Phillips E, Mallal S,Scriba TJ, Sette A, Lindestam Arlehamn CS.
  Hum Immunol. 2018 Mar;79(3):143-144. doi: 10.1016/j.humimm.2018.01.004.

• 30. Correction: Definition of Human Epitopes Recognized in Tetanus Toxoid and Development of an Assay Strategy to Detect Ex Vivo Tetanus CD4+ T Cell Responses. da Silva Antunes R, Paul S, Sidney J, Weiskopf D, Dan JM, Phillips E, Mallal S,Crotty S, Sette A, Lindestam Arlehamn CS.
  PLoS One. 2018 Feb 20;13(2):e0193382. doi: 10.1371/journal.pone.0193382. eCollection 2018.

• 31. Sex hormones, gender and asthma. Yung JA, Fuseini H, Newcomb DC.
  Ann Allergy Asthma Immunol. 2018 Feb 1. pii: S1081-1206(18)30023-1. doi: 10.1016/j.anai.2018.01.016. [Epub ahead of print] Review.

• 32. Helicobacter pylori Type IV Secretion System and Its Adhesin Subunit, CagL, Mediate Potent Inflammatory Responses in Primary Human Endothelial Cells. Tafreshi M, Guan J, Gorrell RJ, Chew N, Xin Y, Deswaerte V, Rohde M, Daly RJ, Peek RM Jr., Jenkins BJ, Davies EM, Kwok T.
  Front Cell Infect Microbiol. 2018 Feb 6;8:22. doi: 10.3389/fcimb.2018.00022. eCollection 2018.

• 33. Phenotypic heterogeneity of ZMPSTE24 deficiency. Cassini TA, Robertson AK, Bican AG, Cogan JD, Hannig VL, Newman JH, Hamid R, Phillips JA 3rd; Undiagnosed Diseases Network.
  Am J Med Genet A. 2018 Jan 17. doi: 10.1002/ajmg.a.38493. [Epub ahead of print]

• 34. Three-dimensional spatial analysis of missense variants in RTEL1 identifies pathogenic variants in patients with Familial Interstitial Pneumonia. Sivley RM, Sheehan JH, Kropski JA, Cogan J, Blackwell TS, Phillips JA, Bush WS, Meiler J, Capra JA.
  BMC Bioinformatics. 2018 Jan 23;19(1):18. doi: 10.1186/s12859-018-2010-z.

• 35. Clinical heterogeneity of mitochondrial NAD kinase deficiency caused by a NADK2 start loss variant. McGregor T, Gauthier J, Millington DS, Andrae JLW, Tschannen MR, Helbling DC, Demos WM, Denis S, Wanders RJA, Newman JN, Hamid R, Phillips JA 3rd; Collaborators of UDN.
  Am J Med Genet A. 2018 Mar;176(3):692-698. doi: 10.1002/ajmg.a.38602. Epub 2018 Feb 1.

• 36. Asymmetric PI3K Activity in Lymphocytes Organized by a PI3K-Mediated Polarity Pathway. Chen YH, Kratchmarov R, Lin WW, Rothman NJ, Yen B, Adams WC, Nish SA, Rathmell JC, Reiner SL.
  Cell Rep. 2018 Jan 23;22(4):860-868. doi: 10.1016/j.celrep.2017.12.087. Epub 2018 Jan 28.

• 37. Life history linked to immune investment in developing amphibians. Woodhams DC, Bell SC, Bigler L, Caprioli RM, Chaurand P, Lam BA, Reinert LK, Stalder U, Vazquez VM, Schliep K, Hertz A, Rollins-Smith LA.
  Conserv Physiol. 2016 Aug 26;4(1):cow025. eCollection 2016.

• 38. DNA methyltransferase inhibition upregulates MHC-I to potentiate cytotoxic T lymphocyte responses in breast cancer. Luo N, Nixon MJ, Gonzalez-Ericsson PI, Sanchez V, Opalenik SR, Li H, Zahnow CA, Nickels ML, Liu F, Tantawy MN, Sanders ME, Manning HC, Balko JM.
  Nat Commun. 2018 Jan 16;9(1):248. doi: 10.1038/s41467-017-02630-w.

• 39. Fur regulation of Staphylococcus aureus heme oxygenases is required for heme homeostasis. Lojek LJ, Farrand AJ, Weiss A, Skaar EP.
  Int J Med Microbiol. 2018 Feb 1. pii: S1438-4221(17)30372-7. doi: 10.1016/j.ijmm.2018.01.009. [Epub ahead of print]

• 40. Staphylococcus aureus HemX Modulates Glutamyl-tRNA Reductase Abundance To Regulate Heme Biosynthesis. Choby JE, Grunenwald CM, Celis AI, Gerdes SY, DuBois JL, Skaar EP.
  MBio. 2018 Feb 6;9(1). pii: e02287-17. doi: 10.1128/mBio.02287-17.

• 41. Alternative splicing of ALCAM enables tunable regulation of cell-cell adhesion through differential proteolysis. Hebron KE, Li EY, Arnold Egloff SA, von Lersner AK, Taylor C, Houkes J, Flaherty DK, Eskaros A, Stricker TP, Zijlstra A.
  Sci Rep. 2018 Feb 16;8(1):3208. doi: 10.1038/s41598-018-21467-x.

• 42. Cell-free hemoglobin promotes primary graft dysfunction through oxidative lung endothelial injury. Shaver CM, Wickersham N, McNeil JB, Nagata H, Miller A, Landstreet SR, Kuck JL, Diamond JM, Lederer DJ, Kawut SM, Palmer SM, Wille KM, Weinacker A, Lama VN, Crespo MM, Orens JB, Shah PD, Hage CA, Cantu E 3rd, Porteous MK, Dhillon G, McDyer J, Bastarache JA, Christie JD, Ware LB; Lung Transplant Outcomes Group (LTOG).
  JCI Insight. 2018 Jan 25;3(2). pii: 98546. doi: 10.1172/jci.insight.98546. [Epub ahead of print]

• 43.Pharmacogenomic biomarkers do not predict response to drotrecogin alfa in patients with severe sepsis. Annane D, Mira JP, Ware LB, Gordon AC, Hinds CJ, Christiani DC, Sevransky J, Barnes K, Buchman TG, Heagerty PJ, Balshaw R, Lesnikova N, de Nobrega K, Wellman HF, Neira M, Mancini ADJ, Walley KR, Russell JA.
  Ann Intensive Care. 2018 Jan 31;8(1):16. doi: 10.1186/s13613-018-0353-2.

• 44. Pediatric Acute Respiratory Distress Syndrome - Increase the PEEP? McKown AC, Ware LB.
  Am J Respir Crit Care Med. 2018 Feb 16. doi: 10.1164/rccm.201802-0266ED. [Epub ahead of print]

• 45. Stability of ARDS subphenotypes over time in two randomised controlled trials. Delucchi K, Famous KR, Ware LB, Parsons PE, Thompson BT, Calfee CS; ARDS Network.
  Thorax. 2018 Feb 24. pii: thoraxjnl-2017-211090. doi: 10.1136/thoraxjnl-2017-211090. [Epub ahead of print]

• 46. Inhibition of Wnt/β-catenin signaling ameliorates osteoarthritis in a murine model of experimental osteoarthritis. CLietman C, Wu B, Lechner S, Shinar A, Sehgal M, Rossomacha E, Datta P, Sharma A, Gandhi R, Kapoor M, Young PP.
  JCI Insight. 2018 Feb 8;3(3). pii: 96308. doi: 10.1172/jci.insight.96308. [Epub ahead of print]

• 47. Size matters in nanoscale communication. Zijlstra A, Di Vizio D.
  Nat Cell Biol. 2018 Mar;20(3):228-230. doi: 10.1038/s41556-018-0049-8.