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2015 Published Articles

1. Zhu J, Chen C, Yang B, Guo Y, Ai H, Ren J, et al. A systems genetics study of swine illustrates mechanisms underlying human phenotypic traits. BMC Genomics. 2015;16(1):88. doi: 10.1186/s12864-015-1240-y.
2. Zhang G, Smith SG, Zhou M-M. Discovery of Chemical Inhibitors of Human Bromodomains. Chemical Reviews. 2015;115(21):11625-68. doi: 10.1021/acs.chemrev.5b00205.
3. Yoo S, Takikawa S, Geraghty P, Argmann C, Campbell J, Lin L, et al. Integrative Analysis of DNA Methylation and Gene Expression Data Identifies EPAS1 as a Key Regulator of COPD. PLOS Genetics. 2015;11(1):e1004898. doi: 10.1371/journal.pgen.1004898.
4. Yang J, Huang T, Petralia F, Long Q, Zhang B, Argmann C, et al. Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases. Scientific Reports. 2015;5:15145. doi: 10.1038/srep15145
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5. Winkler TW, Justice AE, Graff M, Barata L, Feitosa MF, Chu S, et al. The Influence of Age and Sex on Genetic Associations with Adult Body Size and Shape: A Large-Scale Genome-Wide Interaction Study. PLOS Genetics. 2015;11(10):e1005378. doi: 10.1371/journal.pgen.1005378.
6. Wessel J, Chu AY, Willems SM, Wang S, Yaghootkar H, Brody JA, et al. Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility. Nature Communications. 2015;6:5897. doi: 10.1038/ncomms6897
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7. Webb BD, Wheeler PG, Hagen JJ, Cohen N, Linderman MD, Diaz GA, et al. Novel, Compound Heterozygous, Single Nucleotide Variants in MARS2 Associated with Developmental Delay, Poor Growth, and Sensorineural Hearing Loss. Human mutation. 2015;36(6):587-92. doi: 10.1002/humu.22781. PubMed PMID: PMC4439286.
8. Wang M, Zhao Y, Zhang B. Efficient Test and Visualization of Multi-Set Intersections. Scientific Reports. 2015;5:16923. doi: 10.1038/srep16923
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9. Wang L, Gong Y, Chippada-Venkata U, Heck MM, Retz M, Nawroth R, et al. A robust blood gene expression-based prognostic model for castration-resistant prostate cancer. BMC Medicine. 2015;13:201. doi: 10.1186/s12916-015-0442-0. PubMed PMID: PMC4546313.
10. Wang J, Liao J, Zhang J, Cheng W-Y, Hakenberg J, Ma M, et al. ClinLabGeneticist: a tool for clinical management of genetic variants from whole exome sequencing in clinical genetic laboratories. Genome Medicine. 2015;7(1):77. doi: 10.1186/s13073-015-0207-6. PubMed PMID: PMC4558641.
11. Udler MS, Nadkarni GN, Belbin G, Lotay V, Wyatt C, Gottesman O, et al. Effect of Genetic African Ancestry on eGFR and Kidney Disease. Journal of the American Society of Nephrology : JASN. 2015;26(7):1682-92. doi: 10.1681/ASN.2014050474. PubMed PMID: PMC4483587.
12. Topol A, Zhu S, Tran N, Simone A, Fang G, Brennand KJ. Altered WNT signaling in hiPSC NPCs derived from four schizophrenia patients. Biological psychiatry. 2015;78(6):e29-e34. doi: 10.1016/j.biopsych.2014.12.028. PubMed PMID: PMC4520784.
13. Topol A, English JA, Flaherty E, Rajarajan P, Hartley BJ, Gupta S, et al. Increased abundance of translation machinery in stem cell–derived neural progenitor cells from four schizophrenia patients. Translational Psychiatry. 2015;5(10):e662. doi: 10.1038/tp.2015.118. PubMed PMID: PMC4930118.
14. Toledo CM, Ding Y, Hoellerbauer P, Davis RJ, Basom R, Girard EJ, et al. Genome-wide CRISPR-Cas9 screens reveal loss of redundancy between PKMYT1 and WEE1 in Glioblastoma stem-like cells. Cell reports. 2015;13(11):2425-39. doi: 10.1016/j.celrep.2015.11.021. PubMed PMID: PMC4691575.
15. The Genomes Project C. A global reference for human genetic variation. Nature. 2015;526:68. doi: 10.1038/nature15393
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16. Teixeira A, Yen B, Gusella GL, Thomas AG, Mullen MP, Aberg J, et al. Prothymosin α Variants Isolated From CD8(+) T Cells and Cervicovaginal Fluid Suppress HIV-1 Replication Through Type I Interferon Induction. The Journal of Infectious Diseases. 2015;211(9):1467-75. doi: 10.1093/infdis/jiu643. PubMed PMID: PMC4425839.
17. Sun H, Damez-Werno DM, Scobie KN, Shao NY, Dias C, Rabkin J, et al. ACF chromatin-remodeling complex mediates stress-induced depressive-like behavior. Nat Med. 2015;21(10):1146-53. Epub 2015/09/22. doi: 10.1038/nm.3939. PubMed PMID: 26390241; PubMed Central PMCID: PMCPMC4598281.
18. Song W-M, Zhang B. Multiscale Embedded Gene Co-expression Network Analysis. PLOS Computational Biology. 2015;11(11):e1004574. doi: 10.1371/journal.pcbi.1004574.
19. Smith CC, Zhang C, Lin K, Lasater EA, Zhang Y, Massi E, et al. Characterizing and Overriding the Structural Mechanism of the Quizartinib-resistant FLT3 “Gatekeeper” F691L Mutation with PLX3397. Cancer discovery. 2015;5(6):668-79. doi: 10.1158/2159-8290.CD-15-0060. PubMed PMID: PMC4522415.
20. Shen N, Clemente JC. Engineering the Microbiome: a Novel Approach to Immunotherapy for Allergic and Immune Diseases. Current Allergy and Asthma Reports. 2015;15(7):39. doi: 10.1007/s11882-015-0538-9.
21. Shen L. Automatic genome segmentation with HMM-ANN hybrid models. bioRxiv. 2015. doi: 10.1101/034579.
22. Shang Y, Filizola M. Opioid receptors: Structural and mechanistic insights into pharmacology and signaling. European journal of pharmacology. 2015;763(0 0):206-13. doi: 10.1016/j.ejphar.2015.05.012. PubMed PMID: PMC4584181.
23. Schneider S, Provasi D, Filizola M. The Dynamic Process of Drug-GPCR Binding at Either Orthosteric or Allosteric Sites Evaluated by Metadynamics. Methods in molecular biology (Clifton, NJ). 2015;1335:277-94. doi: 10.1007/978-1-4939-2914-6_18. PubMed PMID: PMC4703114.
24. Schliekelman MJ, Taguchi A, Zhu J, Dai X, Rodriguez J, Celiktas M, et al. Molecular portraits of epithelial, mesenchymal and hybrid states in lung adenocarcinoma and their relevance to survival. Cancer research. 2015;75(9):1789-800. doi: 10.1158/0008-5472.CAN-14-2535. PubMed PMID: PMC4846295.
25. Sanderson SC, Linderman MD, Zinberg R, Bashir A, Kasarskis A, Zweig M, et al. How do students react to analyzing their own genomes in a whole-genome sequencing course?: outcomes of a longitudinal cohort study. Genetics In Medicine. 2015;17:866. doi: 10.1038/gim.2014.203
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26. Rivas MA, Pirinen M, Conrad DF, Lek M, Tsang EK, Karczewski KJ, et al. Impact of predicted protein-truncating genetic variants on the human transcriptome. Science (New York, NY). 2015;348(6235):666-9. doi: 10.1126/science.1261877. PubMed PMID: PMC4537935.
27. Ren C, Morohashi K, Plotnikov AN, Jakoncic J, Smith SG, Li J, et al. Small Molecule Modulators of Methyl-Lysine Binding for the CBX7 Chromodomain. Chemistry & biology. 2015;22(2):161-8. doi: 10.1016/j.chembiol.2014.11.021. PubMed PMID: PMC4336573.
28. Readhead B, Haure-Mirande JV, Zhang B, Haroutunian V, Gandy S, Schadt EE, et al. Molecular systems evaluation of oligomerogenic APPE693Q and fibrillogenic APPKM670/671NL/PSEN1Δexon9 mouse models identifies shared features with human Alzheimer’s brain molecular pathology. Molecular Psychiatry. 2015;21:1099. doi: 10.1038/mp.2015.167
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29. Provasi D, Boz MB, Johnston JM, Filizola M. Preferred Supramolecular Organization and Dimer Interfaces of Opioid Receptors from Simulated Self-Association. PLOS Computational Biology. 2015;11(3):e1004148. doi: 10.1371/journal.pcbi.1004148.
30. Pierson E, the GC, Koller D, Battle A, Mostafavi S. Sharing and Specificity of Co-expression Networks across 35 Human Tissues. PLOS Computational Biology. 2015;11(5):e1004220. doi: 10.1371/journal.pcbi.1004220.
31. Petralia F, Wang P, Yang J, Tu Z. Integrative random forest for gene regulatory network inference. Bioinformatics. 2015;31(12):i197-i205. doi: 10.1093/bioinformatics/btv268. PubMed PMID: PMC4542785.
32. Pereira E, Camacho-Vanegas O, Anand S, Sebra R, Catalina Camacho S, Garnar-Wortzel L, et al. Personalized Circulating Tumor DNA Biomarkers Dynamically Predict Treatment Response and Survival In Gynecologic Cancers. PLoS ONE. 2015;10(12):e0145754. doi: 10.1371/journal.pone.0145754. PubMed PMID: PMC4696808.
33. Pak TR, Kasarskis A. How Next-Generation Sequencing and Multiscale Data Analysis Will Transform Infectious Disease Management. Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America. 2015;61(11):1695-702. doi: 10.1093/cid/civ670. PubMed PMID: PMC4643486.
34. Pak TR, Altman DR, Attie O, Sebra R, Hamula CL, Lewis M, et al. Whole-Genome Sequencing Identifies Emergence of a Quinolone Resistance Mutation in a Case of Stenotrophomonas maltophilia Bacteremia. Antimicrobial Agents and Chemotherapy. 2015;59(11):7117-20. doi: 10.1128/AAC.01723-15. PubMed PMID: PMC4604410.
35. Obregon-Tito AJ, Tito RY, Metcalf J, Sankaranarayanan K, Clemente JC, Ursell LK, et al. Subsistence strategies in traditional societies distinguish gut microbiomes. Nature Communications. 2015;6:6505. doi: 10.1038/ncomms7505
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36. Nonnenmacher M, van Bakel H, Hajjar RJ, Weber T. High Capsid–Genome Correlation Facilitates Creation of AAV Libraries for Directed Evolution. Molecular Therapy. 2015;23(4):675-82. doi: 10.1038/mt.2015.3. PubMed PMID: PMC4395795.
37. Noh KM, Maze I, Zhao D, Xiang B, Wenderski W, Lewis PW, et al. ATRX tolerates activity-dependent histone H3 methyl/phos switching to maintain repetitive element silencing in neurons. Proc Natl Acad Sci U S A. 2015;112(22):6820-7. Epub 2014/12/30. doi: 10.1073/pnas.1411258112. PubMed PMID: 25538301; PubMed Central PMCID: PMCPMC4460490.
38. Nikpay M, Goel A, Won H-H, Hall LM, Willenborg C, Kanoni S, et al. A comprehensive 1000 Genomes-based genome-wide association meta-analysis of coronary artery disease. Nature genetics. 2015;47(10):1121-30. doi: 10.1038/ng.3396. PubMed PMID: PMC4589895.
39. Narzo AFD, Kozlenkov A, Ge Y, Zhang B, Sanelli L, May Z, et al. Decrease of mRNA Editing after Spinal Cord Injury is Caused by Down-regulation of ADAR2 that is Triggered by Inflammatory Response. Scientific Reports. 2015;5:12615. doi: 10.1038/srep12615. PubMed PMID: PMC4519770.
40. Mitsi V, Terzi D, Purushothaman I, Manouras L, Gaspari S, Neve RL, et al. RGS9-2--controlled adaptations in the striatum determine the onset of action and efficacy of antidepressants in neuropathic pain states. Proc Natl Acad Sci U S A. 2015;112(36):E5088-97. Epub 2015/08/26. doi: 10.1073/pnas.1504283112. PubMed PMID: 26305935; PubMed Central PMCID: PMCPMC4568688.
41. Mezei M. Statistical Properties of Protein-Protein Interfaces. Algorithms. 2015;8(2). doi: 10.3390/a8020092.
42. Mezei M. Use of circular variance to quantify the deviation of a macromolecule from the spherical shape. Journal of mathematical chemistry. 2015;53(10):2184-90. doi: 10.1007/s10910-015-0540-4. PubMed PMID: PMC4684833.
43. Menon MC, Chuang PY, Li Z, Wei C, Zhang W, Luan Y, et al. Intronic locus determines SHROOM3 expression and potentiates renal allograft fibrosis. The Journal of Clinical Investigation. 2015;125(1):208-21. doi: 10.1172/JCI76902. PubMed PMID: PMC4382250.
44. Meng F, Speyer CL, Zhang B, Zhao Y, Chen W, Gorski DH, et al. PDGFRα and β Play Critical Roles in Mediating Foxq1-Driven Breast Cancer Stemness and Chemoresistance. Cancer research. 2015;75(3):584-93. doi: 10.1158/0008-5472.CAN-13-3029. PubMed PMID: PMC4384815.
45. Maze I, Wenderski W, Noh KM, Bagot RC, Tzavaras N, Purushothaman I, et al. Critical Role of Histone Turnover in Neuronal Transcription and Plasticity. Neuron. 2015;87(1):77-94. Epub 2015/07/04. doi: 10.1016/j.neuron.2015.06.014. PubMed PMID: 26139371; PubMed Central PMCID: PMCPMC4491146.
46. Mathers AJ, Stoesser N, Sheppard AE, Pankhurst L, Giess A, Yeh AJ, et al. Klebsiella pneumoniae Carbapenemase (KPC)-Producing K. pneumoniae at a Single Institution: Insights into Endemicity from Whole-Genome Sequencing. Antimicrobial Agents and Chemotherapy. 2015;59(3):1656-63.
47. Ma M, Ru Y, Chuang L-S, Hsu N-Y, Shi L-S, Hakenberg J, et al. Disease-associated variants in different categories of disease located in distinct regulatory elements. BMC Genomics. 2015;16(Suppl 8):S3-S. doi: 10.1186/1471-2164-16-S8-S3. PubMed PMID: PMC4480828.
48. Locke AE, Kahali B, Berndt SI, Justice AE, Pers TH, Day FR, et al. Genetic studies of body mass index yield new insights for obesity biology. Nature. 2015;518(7538):197-206. doi: 10.1038/nature14177. PubMed PMID: PMC4382211.
49. Linderman MD, Bashir A, Diaz GA, Kasarskis A, Sanderson SC, Zinberg RE, et al. Preparing the next generation of genomicists: a laboratory-style course in medical genomics. BMC Medical Genomics. 2015;8(1):47. doi: 10.1186/s12920-015-0124-y.
50. Lin X, Zhao Y, Song W-m, Zhang B. Molecular classification and prediction in gastric cancer. Computational and Structural Biotechnology Journal. 2015;13:448-58. doi: 10.1016/j.csbj.2015.08.001. PubMed PMID: PMC4556804.
51. Li L, Cheng W-Y, Glicksberg BS, Gottesman O, Tamler R, Chen R, et al. Identification of type 2 diabetes subgroups through topological analysis of patient similarity. Science translational medicine. 2015;7(311):311ra174-311ra174. doi: 10.1126/scitranslmed.aaa9364. PubMed PMID: PMC4780757.
52. Latif R, Ali MR, Mezei M, Davies TF. Transmembrane Domains of Attraction on the TSH Receptor. Endocrinology. 2015;156(2):488-98. doi: 10.1210/en.2014-1509. PubMed PMID: PMC4298320.
53. Latif R, Ali MR, Ma R, David M, Morshed SA, Ohlmeyer M, et al. New Small Molecule Agonists to the Thyrotropin Receptor. Thyroid. 2015;25(1):51-62. doi: 10.1089/thy.2014.0119. PubMed PMID: PMC4291085.
54. Kwon Y-J, Petrie K, Leibovitch BA, Zeng L, Mezei M, Howell L, et al. Selective inhibition of SIN3 corepressor with avermectins as a novel therapeutic strategy in triple negative breast cancer. Molecular cancer therapeutics. 2015;14(8):1824-36. doi: 10.1158/1535-7163.MCT-14-0980-T. PubMed PMID: PMC4529816.
55. Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, et al. Integrative analysis of 111 reference human epigenomes. Nature. 2015;518(7539):317-30. Epub 2015/02/20. doi: 10.1038/nature14248. PubMed PMID: 25693563; PubMed Central PMCID: PMCPMC4530010.
56. Joshi PK, Esko T, Mattsson H, Eklund N, Gandin I, Nutile T, et al. Directional dominance on stature and cognition in diverse human populations. Nature. 2015;523:459. doi: 10.1038/nature14618
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57. Huan T, Meng Q, Saleh MA, Norlander AE, Joehanes R, Zhu J, et al. Integrative network analysis reveals molecular mechanisms of blood pressure regulation. Molecular Systems Biology. 2015;11(4):799. doi: 10.15252/msb.20145399. PubMed PMID: PMC4422556.
58. Hodes GE, Pfau ML, Purushothaman I, Ahn HF, Golden SA, Christoffel DJ, et al. Sex Differences in Nucleus Accumbens Transcriptome Profiles Associated with Susceptibility versus Resilience to Subchronic Variable Stress. The Journal of Neuroscience. 2015;35(50):16362-76. doi: 10.1523/jneurosci.1392-15.2015.
59. Hayes JE, Trynka G, Vijai J, Offit K, Raychaudhuri S, Klein RJ. Tissue-Specific Enrichment of Lymphoma Risk Loci in Regulatory Elements. PLOS ONE. 2015;10(9):e0139360. doi: 10.1371/journal.pone.0139360.
60. Hartmann BM, Thakar J, Albrecht RA, Avey S, Zaslavsky E, Marjanovic N, et al. Human Dendritic Cell Response Signatures Distinguish 1918, Pandemic, and Seasonal H1N1 Influenza Viruses. Journal of Virology. 2015;89(20):10190-205. doi: 10.1128/JVI.01523-15. PubMed PMID: PMC4580178.
61. Hao K, Di Narzo AF, Ho L, Luo W, Li S, Chen R, et al. Shared genetic etiology underlying Alzheimer's disease and type 2 diabetes. Molecular Aspects of Medicine. 2015;43-44:66-76. doi:
62. Gymrek M, Willems T, Guilmatre A, Zeng H, Markus B, Georgiev S, et al. Abundant contribution of short tandem repeats to gene expression variation in humans. Nature Genetics. 2015;48:22. doi: 10.1038/ng.3461
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63. Glicksberg BS, Li L, Cheng W-Y, Shameer K, Hakenberg J, Castellanos R, et al. AN INTEGRATIVE PIPELINE FOR MULTI-MODAL DISCOVERY OF DISEASE RELATIONSHIPS. Pacific Symposium on Biocomputing Pacific Symposium on Biocomputing. 2015;20:407-18. PubMed PMID: PMC4345399.
64. Gaulton KJ, Ferreira T, Lee Y, Raimondo A, Mägi R, Reschen ME, et al. Genetic fine-mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci. Nature genetics. 2015;47(12):1415-25. doi: 10.1038/ng.3437. PubMed PMID: PMC4666734.
65. Fulton BO, Sachs D, Beaty SM, Won ST, Lee B, Palese P, et al. Mutational analysis of measles virus suggests constraints on antigenic variation of the glycoproteins. Cell reports. 2015;11(9):1331-8. doi: 10.1016/j.celrep.2015.04.054. PubMed PMID: PMC4464907.
66. Ferguson D, Shao N, Heller E, Feng J, Neve R, Kim HD, et al. SIRT1-FOXO3a regulate cocaine actions in the nucleus accumbens. J Neurosci. 2015;35(7):3100-11. Epub 2015/02/24. doi: 10.1523/jneurosci.4012-14.2015. PubMed PMID: 25698746; PubMed Central PMCID: PMCPMC4331629.
67. Feng J, Shao N, Szulwach KE, Vialou V, Huynh J, Zhong C, et al. Role of Tet1 and 5-hydroxymethylcytosine in cocaine action. Nat Neurosci. 2015;18(4):536-44. Epub 2015/03/17. doi: 10.1038/nn.3976. PubMed PMID: 25774451; PubMed Central PMCID: PMCPMC4617315.
68. Ding J, Huang X, Shao N, Zhou H, Lee DF, Faiola F, et al. Tex10 Coordinates Epigenetic Control of Super-Enhancer Activity in Pluripotency and Reprogramming. Cell Stem Cell. 2015;16(6):653-68. Epub 2015/05/06. doi: 10.1016/j.stem.2015.04.001. PubMed PMID: 25936917; PubMed Central PMCID: PMCPMC4458159.
69. Dincer A, Gavin DP, Xu K, Zhang B, Dudley JT, Schadt EE, et al. Deciphering H3K4me3 broad domains associated with gene-regulatory networks and conserved epigenomic landscapes in the human brain. Translational Psychiatry. 2015;5(11):e679. doi: 10.1038/tp.2015.169. PubMed PMID: PMC5068762.
70. Deng Y, Wang L, Tan S, Kim GP, Dou R, Chen D, et al. KRAS as a predictor of poor prognosis and benefit from postoperative FOLFOX chemotherapy in patients with stage II and III colorectal cancer. Molecular Oncology. 2015;9(7):1341-7. doi: 10.1016/j.molonc.2015.03.006. PubMed PMID: PMC5528807.
71. Das SK, Sharma NK, Zhang B. Integrative network analysis reveals different pathophysiological mechanisms of insulin resistance among Caucasians and African Americans. BMC Medical Genomics. 2015;8:4. doi: 10.1186/s12920-015-0078-0. PubMed PMID: PMC4351975.
72. Clemente JC, Pehrsson EC, Blaser MJ, Sandhu K, Gao Z, Wang B, et al. The microbiome of uncontacted Amerindians. Science Advances. 2015;1(3).
73. Chikina MD, Gerald CP, Li X, Ge Y, Pincas H, Nair VD, et al. Low variance RNAs identify Parkinson’s disease molecular signature in blood. Movement disorders : official journal of the Movement Disorder Society. 2015;30(6):813-21. doi: 10.1002/mds.26205. PubMed PMID: PMC4439364.
74. Chikina M, Zaslavsky E, Sealfon SC. CellCODE: a robust latent variable approach to differential expression analysis for heterogeneous cell populations. Bioinformatics. 2015;31(10):1584-91. doi: 10.1093/bioinformatics/btv015. PubMed PMID: PMC4426841.
75. Chapouly C, Tadesse Argaw A, Horng S, Castro K, Zhang J, Asp L, et al. Astrocytic TYMP and VEGFA drive blood–brain barrier opening in inflammatory central nervous system lesions. Brain. 2015;138(6):1548-67. doi: 10.1093/brain/awv077. PubMed PMID: PMC4614128.
76. Carithers LJ, Ardlie K, Barcus M, Branton PA, Britton A, Buia SA, et al. A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project. Biopreservation and Biobanking. 2015;13(5):311-9. doi: 10.1089/bio.2015.0032. PubMed PMID: PMC4675181.
77. Burford NT, Livingston KE, Canals M, Ryan MR, Budenholzer LML, Han Y, et al. Discovery, Synthesis, and Molecular Pharmacology of Selective Positive Allosteric Modulators of the δ-Opioid Receptor. Journal of Medicinal Chemistry. 2015;58(10):4220-9. doi: 10.1021/acs.jmedchem.5b00007.
78. Buitrago L, Rendon A, Liang Y, Simeoni I, Negri A, ThromboGenomics C, et al. αIIbβ3 variants defined by next-generation sequencing: Predicting variants likely to cause Glanzmann thrombasthenia. Proceedings of the National Academy of Sciences of the United States of America. 2015;112(15):E1898-E907. doi: 10.1073/pnas.1422238112. PubMed PMID: PMC4403182.
79. Brohl AS, Li L, Andikyan V, Običan SG, Cioffi A, Hao K, et al. Age-Stratified Risk of Unexpected Uterine Sarcoma Following Surgery for Presumed Benign Leiomyoma. The Oncologist. 2015;20(4):433-9. doi: 10.1634/theoncologist.2014-0361. PubMed PMID: PMC4391766.
80. Bisignano P, Burford NT, Shang Y, Marlow B, Livingston KE, Fenton AM, et al. Ligand-Based Discovery of a New Scaffold for Allosteric Modulation of the μ-Opioid Receptor. Journal of Chemical Information and Modeling. 2015;55(9):1836-43. doi: 10.1021/acs.jcim.5b00388.
81. Berg D, Clemente JC, Colombel J-F. Can inflammatory bowel disease be permanently treated with short-term interventions on the microbiome? Expert Review of Gastroenterology & Hepatology. 2015;9(6):781-95. doi: 10.1586/17474124.2015.1013031.
82. Benitez AA, Spanko LA, Bouhaddou M, Sachs D, tenOever BR. Engineered mammalian RNAi can elicit antiviral protection that negates the requirement for the interferon response. Cell reports. 2015;13(7):1456-66. doi: 10.1016/j.celrep.2015.10.020. PubMed PMID: PMC4654977.
83. Benitez AA, Panis M, Xue J, Varble A, Shim JV, Frick AL, et al. In vivo RNAi screening identifies MDA5 as a significant contributor to the cellular defense against influenza A virus. Cell reports. 2015;11(11):1714-26. doi: 10.1016/j.celrep.2015.05.032. PubMed PMID: PMC4586153.
84. Bansal N, Petrie K, Christova R, Chung C-Y, Leibovitch BA, Howell L, et al. Targeting the SIN3A-PF1 interaction inhibits epithelial to mesenchymal transition and maintenance of a stem cell phenotype in triple negative breast cancer. Oncotarget. 2015;6(33):34087-105. PubMed PMID: PMC4741438.
85. Badgeley MA, Sealfon SC, Chikina MD. Hybrid Bayesian-rank integration approach improves the predictive power of genomic dataset aggregation. Bioinformatics. 2015;31(2):209-15. doi: 10.1093/bioinformatics/btu518. PubMed PMID: PMC4287939.
86. Ali MR, Latif R, Davies TF, Mezei M. Monte Carlo loop refinement and virtual screening of the thyroid-stimulating hormone receptor transmembrane domain. Journal of biomolecular structure & dynamics. 2015;33(5):1140-52. doi: 10.1080/07391102.2014.932310. PubMed PMID: PMC4484770.
87. Akbarian S, Liu C, Knowles JA, Vaccarino FM, Farnham PJ, Crawford GE, et al. The PsychENCODE project. Nature Neuroscience. 2015;18:1707. doi: 10.1038/nn.4156.
88. Aguado LC, Schmid S, Sachs D, Shim JV, Lim JK, tenOever BR. microRNA function is limited to cytokine control in the acute response to virus infection. Cell host & microbe. 2015;18(6):714-22. doi: 10.1016/j.chom.2015.11.003. PubMed PMID: PMC4683400.
89. The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans. Science. 2015;348(6235):648.

Bisignano, P., Burford, N.T., Shang, Y., Marlow, B., Livingston, K.E., Fenton, A.M., Rockwell,K., Budenholzer, L., Traynor, J., Gerritz, S.W., Alt, A., and Filizola, M. “Ligand-Based Discovery of a New Scaffold for Allosteric Modulation of the mu-Opioid Receptor” (2015) Journal of Chemical Information & Modeling 55(9):1836-43 [PMID:26347990]

Schneider, S., Provasi, D. & Filizola, M. “The Dynamic Process of Drug-GPCR Binding at Either Orthosteric or Allosteric Sites Evaluated by Metadynamics” (2015) Methods in Molecular Biology, 1335:277-294 [PMID:26260607]

Shang, Y. and Filizola, M. “Opioid receptors: Structural and mechanistic insights into pharmacology and signaling” (2015) European Journal of Pharmacology,; [PMID: 25981301]

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