The Program in Molecular Medicine at the University of Massachusetts Medical School was established in a new research building in 1989. Faculty include both clinical investigators and basic scientists, many of whom focus their research on human disease processes. The laboratory groups and core facilities that compose Molecular Medicine represent many disciplines in the bio-medical sciences: biochemistry and molecular biology, cell biology, medicine, immunology, molecular genetics and microbiology, pediatrics, pharmacology, physiology, genomics, bioinformatics and proteomics. This diverse scientific environment makes the Program an exceptional training ground for graduate students and postdoctoral fellows, who in turn contribute much to its vitality and excitement. This collection showcases publications and presentations written by faculty and researchers of the Program in Molecular Medicine.

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Publications from 2015

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Endothelial protein kinase MAP4K4 promotes vascular inflammation and atherosclerosis, Rachel J. Roth Flach, Athanasia Skoura, Anouch Matevossian, Laura V. Danai, Wei Zheng, Christian Cortes, Samit K. Bhattacharya, Myriam Aouadi, G. Nana Hagan, Joseph Yawe, Pranitha Vangala, Lorena Garcia Menendez, Marcus P. Cooper, Timothy P. Fitzgibbons, Leonard Buckbinder, and Michael P. Czech

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Widespread macromolecular interaction perturbations in human genetic disorders, Nidhi Sahni, Song Yi, Mikko Taipale, Juan Fuxman Bass, Jasmin Coulombe-Huntington, Frederick P. Roth, Yu Xia, Albertha J. M. Walhout, Susan Lindquist, and Marc Vidal

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Intraflagellar transport is essential for mammalian spermiogenesis but is absent in mature sperm, Jovenal T. San Agustin, Gregory J. Pazour, and George B. Witman

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Recombination elevates the effective evolutionary rate and facilitates the establishment of HIV-1 infection in infants after mother-to-child transmission, Keri B. Sanborn, Mohan Somasundaran, Katherine Ruiz De Luzuriaga, and Thomas Leitner

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Highly selective in vivo labeling of subcutaneous white adipocyte precursors with Prx1-Cre, Joan Sanchez-Gurmaches, Wen-Yu Hsiao, and David A. Guertin

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Bone marrow-derived c-jun N-terminal kinase-1 (JNK1) mediates liver regeneration, Frederik M. Schaefer, Jin Peng, Wei Hu, Oliver Drvarov, Yulia A. Nevzorova, Gang Zhao, Malika Al. Masaoudi, Roger J. Davis, Christian Trautwein, and Francisco Javier Cubero

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The genome and transcriptome of the zoonotic hookworm Ancylostoma ceylanicum identify infection-specific gene families, Erich M. Schwarz, Yan Hu, Igor Antoshechkin, Melanie M. Miller, Paul W. Sternberg, and Raffi V. Aroian

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Protection against Experimental Cryptococcosis following Vaccination with Glucan Particles Containing Cryptococcus Alkaline Extracts, Charles A. Specht, Chrono K. Lee, Haibin Huang, Donald J. Tipper, Zu T. Shen, Jennifer K. Lodge, John D. Leszyk, Gary R. Ostroff, and Stuart M. Levitz

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An efficient and sensitive method for preparing cDNA libraries from scarce biological samples, Catherine H. Sterling, Isana Veksler-Lublinsky, and Victor R. Ambros

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Animal Models for Alopecia Areata: What and Where, John P. Sundberg, Kevin McElwee, Michael A. Brehm, Lishan Su, and Lloyd E. King Jr

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Dynamical features of the Plasmodium falciparum ribosome during translation, Ming Sun, Wen Li, Karin Blomqvist, Sanchaita Das, Yaser Hashem, Jeffrey D. Dvorin, and Joachim Frank

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Size- and shape-dependent foreign body immune response to materials implanted in rodents and non-human primates, Omid Veiseh, Dale L. Greiner, and Daniel G. Anderson

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eIF2alpha Confers Cellular Tolerance to S. aureus alpha-Toxin, Gisela von Hoven, Claudia Neukirch, Martina Meyenburg, Sabine Fuser, Maria Bidna Petrivna, Amable J. Rivas, Alexey Ryazanov, Randal J. Kaufman, Raffi V. Aroian, and Matthias Husmann

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Adenovirus-Mediated Somatic Genome Editing of Pten by CRISPR/Cas9 in Mouse Liver in Spite of Cas9-Specific Immune Responses, Dan Wang, Haiwei Mou, Shaoyong Li, Yingxiang Li, Soren Hough, Karen Tran, Jia Li, Hao Yin, Daniel G. Anderson, Erik J. Sontheimer, Zhiping Weng, Guangping Gao, and Wen Xue

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Structural analyses of the chromatin remodelling enzymes INO80-C and SWR-C, Shinya Watanabe, Dongyan Tan, Mahadevan Lakshminarasimhan, Michael P. Washburn, Eun-Jin Erica. Hong, Thomas Walz, and Craig L. Peterson

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Understanding Metabolic Regulation at a Systems Level: Metabolite Sensing, Mathematical Predictions, and Model Organisms, Emma Watson, L. Safak Yilmaz, and Albertha J. M. Walhout

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Ack1 is a dopamine transporter endocytic brake that rescues a trafficking-dysregulated ADHD coding variant, Sijia Wu, Karl D. Bellve, Kevin E. Fogarty, and Haley Melikian

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The Ino80 complex prevents invasion of euchromatin into silent chromatin, Yong Xue, Christopher Van, Suman K. Pradhan, Trent Su, Jason Gehrke, Benjamin G. Kuryan, Tasuku Kitada, Ajay Vashisht, Nancy Tran, James Wohlschlegel, Craig L. Peterson, Siavash K. Kurdistani, and Michael F. Carey

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Lixisenatide accelerates restoration of normoglycemia and improves human beta-cell function and survival in diabetic immunodeficient NOD-scid IL-2rg(null) RIP-DTR mice engrafted with human islets, Chaoxing Yang, Matthias Loehn, Agata Jurczyk, Natalia Przewozniak, Linda Leehy, Pedro L. Herrera, Leonard D. Shultz, Dale L. Greiner, David Harlan, and Rita Bortell

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Pathological axonal death through a MAPK cascade that triggers a local energy deficit, Jing Yang, Zhuhao Wu, Nicolas Renier, David J. Simon, Kunihiro Uryu, David S. Park, Peter A. Greer, Cathy Tournier, Roger J. Davis, and Marc Tessier-Lavigne

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Intraflagellar transport 27 is essential for hedgehog signaling but dispensable for ciliogenesis during hair follicle morphogenesis, Ning Yang, Li Li, Thibaut Eguether, John P. Sundberg, Gregory J. Pazour, and Jiang Chen

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Intraflagellar transport 27 is essential for hedgehog signaling but dispensable for ciliogenesis during hair follicle morphogenesis, Ning Yang, Li Li, Thibaut Eguether, John P. Sundberg, Gregory J. Pazour, and Jiang Chen

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Regulation of Adipose Tissue Inflammation and Insulin Resistance by MAPK Phosphatase 5, Yongliang Zhang, Thang Nguyen, Peng Tang, Norman J. Kennedy, Huipeng Jiao, Mingliang Zhang, Joseph M. Reynolds, Anja Jaeschke, Natalia Martin-Orozco, Yeonseok Chung, Wei-min He, Chen Wang, Weiping Jia, Baoxue Ge, Roger J. Davis, Richard A. Flavell, and Chen Dong

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A multilaboratory comparison of calibration accuracy and the performance of external references in analytical ultracentrifugation, Huaying Zhao, Kimberly A. Crowley, Craig L. Peterson, Sarah G. Swygert, and Peter Schuck

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Caenorhabditis elegans ALG-1 antimorphic mutations uncover functions for Argonaute in microRNA guide strand selection and passenger strand disposal, Anna Y. Zinovyeva, Isana Veksler-Lublinsky, Ajay A. Vashisht, James A. Wohlschlegel, and Victor R. Ambros

Publications from 2014

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NPHP4 controls ciliary trafficking of membrane proteins and large soluble proteins at the transition zone, Junya Awata, Saeko Takada, Clive Standley, Karl-Ferdinand Lechtreck, Karl D. Bellve, Gregory J. Pazour, Kevin E. Fogarty, and George B. Witman

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Transcriptional regulation of Caenorhabditis elegans FOXO/DAF-16 modulates lifespan, Ankita Bansal, Eun-Soo Kwon, Darryl Conte Jr., Haibo Liu, Michael J. Gilchrist, Lesley T. MacNeil, and Heidi A. Tissenbaum

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Gammaretroviral pol sequences act in cis to direct polysome loading and NXF1/NXT-dependent protein production by gag-encoded RNA, Hanni Bartels and Jeremy Luban

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TRIM37 is a new histone H2A ubiquitin ligase and breast cancer oncoprotein, Sanchita Bhatnagar, Claude Gazin, Lynn Chamberlain, Jianhong Ou, Xiaochun Zhu, Jogender S. Tushir, Ching-Man A. Virbasius, Ling Lin, Lihua Julie Zhu, Narendra Wajapeyee, and Michael R. Green

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Genetic and pharmacological reactivation of the mammalian inactive X chromosome, Sanchita Bhatnagar, Xiaochun Zhu, Jianhong Ou, Ling Lin, Lynn Chamberlain, Lihua Julie Zhu, Narendra Wajapeyee, and Michael R. Green

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Spectrum and mechanisms of inflammasome activation by chitosan, Chelsea L. Bueter, Chrono K. Lee, Jennifer P. Wang, Gary R. Ostroff, Charles A. Specht, and Stuart M. Levitz

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Unbiased chromatin accessibility profiling by RED-seq uncovers unique features of nucleosome variants in vivo, Poshen B. Chen, Lihua Julie Zhu, Sarah J. Hainer, Kurtis N. McCannell, and Thomas G. Fazzio

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Quantitative analysis of APP axonal transport in neurons: role of JIP1 in enhanced APP anterograde transport, Kyoko Chiba, Masahiko Araseki, Keisuke Nozawa, Keiko Furukori, Yoichi Araki, Takahide Matsushima, Tadashi Nakaya, Saori Hata, Yuhki Saito, Seiichi Uchida, Yasushi Okada, Angus C. Nairn, Roger J. Davis, Tohru Yamamoto, Masataka Kinjo, Hidenori Taru, and Toshiharu Suzuki

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PSF contacts exon 7 of SMN2 pre-mRNA to promote exon 7 inclusion, Sunghee Cho, Heegyum Moon, Tiing Jen Loh, Hyun Kyung Oh, Darren Reese Williams, D. Joshua Liao, Jianhua Zhou, Michael R. Green, Xuexiu Zheng, and Haihong Shen

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Adipose tissue angiogenesis: impact on obesity and type-2 diabetes, Silvia Corvera and Olga Gaelekman

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Distinct functions for IFT140 and IFT20 in opsin transport, Jacquelin A. Crouse, Vanda S. Lopes, Jovenal T. San Agustin, Brian T. Keady, David S. Williams, and Gregory J. Pazour

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Impaired JNK signaling cooperates with KrasG12D expression to accelerate pancreatic ductal adenocarcinoma, Clare C. Davies, Emma Harvey, Raymond F. T. McMahon, Katherine G. Finegan, Frances Connor, Roger J. Davis, David A. Tuveson, and Cathy Tournier

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Cyclophilin A promotes HIV-1 reverse transcription but its effect on transduction correlates best with its effect on nuclear entry of viral cDNA, Alberto De Iaco and Jeremy Luban

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Structural basis for PI(4)P-specific membrane recruitment of the Legionella pneumophila effector DrrA/SidM, Claudia M. Del Campo, Ashwini K. Mishra, Yu-Hsiu Wang, Craig R. Roy, Paul A. Janmey, and David G. Lambright

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Differentiation between temporary and real non-clearability of biotinylated IgG antibody by avidin in mice, Shuping Dou, John Virostko, Mary Rusckowski, Dale L. Greiner, Alvin C. Powers, and Guozheng Liu

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Comparison between two labeled agents in mice using a coinjection-ratio approach in contrast to a conventional group approach, Shuping Dou, Yuzhen Wang, Bruce A. Barton, Ling Chen, Mary Rusckowski, Leonard D. Shultz, Dale L. Greiner, and Guozheng Liu

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The BRAF oncoprotein functions through the transcriptional repressor MAFG to mediate the CpG Island Methylator phenotype, Minggang Fang, Jianhong Ou, Lloyd Hutchinson, and Michael R. Green

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Arf4 is required for Mammalian development but dispensable for ciliary assembly, John A. Follit, Jovenal T. San Agustin, Julie A. Jonassen, Tingting Huang, Jaime A. Rivera-Perez, Kimberly D. Tremblay, and Gregory J. Pazour

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Transcription factor binding to Caenorhabditis elegans first introns reveals lack of redundancy with gene promoters, Juan I. Fuxman Bass, Alex M. Tamburino, Akihiro Mori, Nathan Beittel, Matthew T. Weirauch, John S. Reece-Hoyes, and Albertha J. M. Walhout

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A single vertebrate DNA virus protein disarms invertebrate immunity to RNA virus infection, Don B. Gammon, Sophie Duraffour, Daniel K. Rozelle, Heidi Hehnly, Rita Sharma, Michael E. Sparks, Cara C. West, Ying Chen, James J. Moresco, Graciela Andrei, John H. Connor, Darryl Conte Jr., Dawn E. Gundersen-Rindal, William L. Marshall, John R. Yates, Neal S. Silverman, and Craig C. Mello

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Regulated splicing of the alpha6 integrin cytoplasmic domain determines the fate of breast cancer stem cells, Hira Lal Goel, Tatiana Gritsko, Bryan Pursell, Cheng Chang, Leonard D. Shultz, Dale L. Greiner, Jens Henrik Norum, Rune Toftgard, Leslie M. Shaw, and Arthur M. Mercurio

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An improved predictive recognition model for Cys(2)-His(2) zinc finger proteins, Ankit Gupta, Ryan G. Christensen, Heather A. Bell, Mathew Goodwin, Ronak Y. Patel, Manishi Pandey, Metewo Selase Enuameh, Amy L. Rayla, Cong Zhu, Stacey Thibodeau-Beganny, Michael H. Brodsky, J. Keith Joung, Scot A. Wolfe, and Gary D. Stormo

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Synergistic tumor suppression by combined inhibition of telomerase and CDKN1A, Romi Gupta, Yuying Dong, Peter D. Solomon, Hiromi I. Wettersten, Christopher J. Cheng, JIn-Na Min, Jeremy Henson, Shaillay Kumar Dogra, Sung H. Hwang, Bruce D. Hammock, Lihua Julie Zhu, Roger R. Reddel, W. Mark Saltzman, Robert H. Weiss, Sandy Chang, Michael R. Green, and Narendra Wajapeyee

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Rab11 endosomes contribute to mitotic spindle organization and orientation, Heidi Hehnly and Stephen J. Doxsey

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The machinery at endoplasmic reticulum-plasma membrane contact sites contributes to spatial regulation of multiple Legionella effector proteins, Andree Hubber, Kohei Arasaki, Fubito Nakatsu, Camille Hardiman, David G. Lambright, Pietro De Camilli, Hiroki Nagai, and Craig R. Roy

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Rictor/mTORC2 Loss in the Myf5 Lineage Reprograms Brown Fat Metabolism and Protects Mice against Obesity and Metabolic Disease, Chien-Min Hung, Camila Martinez Calejman, Joan Sanchez-Gurmaches, Huawei Li, Clary B. Clish, Simone Hettmer, Amy J. Wagers, and David A. Guertin

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Exon 9 skipping of apoptotic caspase-2 pre-mRNA is promoted by SRSF3 through interaction with exon 8, Ha Na Jang, Minho Lee, Tiing Jen Loh, Seung-Woo Choi, Hyun Kyung Oh, Heegyum Moon, Sunghee Cho, Seong-Eui Hong, Do Han Kim, Zhi Sheng, Michael R. Green, Daeho Park, Xuexiu Zheng, and Haihong Shen

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A population of Langerin-positive dendritic cells in murine Peyer's patches involved in sampling beta-glucan microparticles, Magdia De Jesus, Gary R. Ostroff, Stuart M. Levitz, Toni R. Bartling, and Nicholas J. Mantis

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Cas9 effector-mediated regulation of transcription and differentiation in human pluripotent stem cells, Nicola A. Kearns, Ryan M. J. Genga, Metewo Selase Enuameh, Manuel Garber, Scot A. Wolfe, and Rene Maehr

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A co-CRISPR strategy for efficient genome editing in Caenorhabditis elegans, Heesun Kim, Takao Ishidate, Krishna S. Ghanta, Meetu Seth, Darryl Conte Jr., Masaki Shirayama, and Craig C. Mello

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Blockade of the programmed death-1 (PD1) pathway undermines potent genetic protection from type 1 diabetes, Nora M. Kochupurakkal, Annie J. Kruger, Sudipta Tripathi, Bing Zhu, La Tonya Adams, Daniel B. Rainbow, Aldo A. Rossini, Dale L. Greiner, Mohamed H. Sayegh, Linda S. Wicker, and Indira Guleria

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Regulation of a transcription factor network by Cdk1 coordinates late cell cycle gene expression, Benjamin D. Landry, Claudine E. Mapa, Heather E. Arsenault, Kristin E. Poti, and Jennifer A. Benanti

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A Large-Scale RNAi-Based Mouse Tumorigenesis Screen Identifies New Lung Cancer Tumor Suppressors that Repress FGFR Signaling, Ling Lin, Lynn Chamberlain, Magnolia L. Pak, Arvindhan Nagarajan, Romi Gupta, Lihua Julie Zhu, Casey M. Wright, Kwun M. Fong, Narendra Wajapeyee, and Michael R. Green

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Cancer-Relevant Splicing Factor CAPERalpha Engages the Essential Splicing Factor SF3b155 in a Specific Ternary Complex, Sarah Loerch, Alexandre Maucuer, Valerie Manceau, Michael R. Green, and Clara L. Kielkopf

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HIV type 1 (HIV-1) proviral reservoirs decay continuously under sustained virologic control in HIV-1-infected children who received early treatment, Katherine Luzuriaga, Barbara Tabak, Manuel Garber, Ya Hui Chen, Carrie Ziemniak, Margaret M. McManus, Danielle Murray, Matthew Strain, Douglas Richman, Tae-Wook Chun, Coleen K. Cunningham, and Deborah Persaud

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Mnk2 alternative splicing modulates the p38-MAPK pathway and impacts Ras-induced transformation, Avraham Maimon, Maxim Mogilevsky, Asaf Shilo, Regina Golan-Gerstl, Akram Obiedat, Vered Ben-Hur, Ilana Lebenthal-Loinger, Ilan Stein, Reuven Reich, Jonah Beenstock, Eldar Zehorai, Claus L. Andersen, Kasper Thorsen, Torben F. Orntoft, Roger J. Davis, Ben Davidson, David Mu, and Rotem Karni

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A therapeutically targetable mechanism of BCR-ABL-independent imatinib resistance in chronic myeloid leukemia, Leyuan Ma, Yi Shan, Robert Bai, Liting Xue, Christopher A. Eide, Jianhong Ou, Lihua Julie Zhu, Lloyd Hutchinson, Jan Cerny, Hanna Jean Khoury, Zhi Sheng, Brian J. Druker, Shaoguang Li, and Michael R. Green

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Direct interactions promote eviction of the Sir3 heterochromatin protein by the SWI/SNF chromatin remodeling enzyme, Benjamin J. Manning and Craig L. Peterson

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The embryonic mir-35 family of microRNAs promotes multiple aspects of fecundity in Caenorhabditis elegans, Katherine McJunkin and Victor R. Ambros

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SRSF2 promotes splicing and transcription of exon 11 included isoform in Ron proto-oncogene, Heegyum Moon, Sunghee Cho, Tiing Jen Loh, Hyun Kyung Oh, Ha Na Jang, Jianhua Zhou, Young-Soo Kwon, D. Joshua Liao, Youngsoo Jun, Soohyun Eom, Claudia Ghigna, Giuseppe Biamonti, Michael R. Green, Xuexiu Zheng, and Haihong Shen

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The hunt for protective correlates of immunity to Plasmodium falciparum malaria, Ann M. Moormann and V. Ann Stewart

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IL-1 signaling in obesity-induced hepatic lipogenesis and steatosis, Kimberly A. Negrin, Rachel J. Roth Flach, Marina T. DiStefano, Anouch Matevossian, Randall H. Friedline, Dae Young Jung, Jason K. Kim, and Michael P. Czech

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miR-14 Regulates Autophagy during Developmental Cell Death by Targeting ip3-kinase 2, Charles Nelson, Victor R. Ambros, and Eric H. Baehrecke

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MicroRNA-378 controls classical brown fat expansion to counteract obesity, Dongning Pan, Chunxiao Mao, Brian Quattrochi, Randall H. Friedline, Lihua Julie Zhu, Dae Young Jung, Jason K. Kim, Brian C. Lewis, and Yong-Xu Wang

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Diversity and expression of microRNAs in the filarial parasite, Brugia malayi, Catherine B. Poole, Weifeng Gu, Sanjay Kumar, Jingmin Jin, Paul J. Davis, David Bauche, and Larry A. McReynolds

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Drosophila Sirt2/mammalian SIRT3 deacetylates ATP synthase beta and regulates complex V activity, Motiur Rahman, Niraj K. Nirala, Alka Singh, Lihua Julie Zhu, Kaori Taguchi, Takeshi Bamba, Eiichiro Fukusaki, Leslie M. Shaw, David G. Lambright, Jairaj K. Acharya, and Usha R. Acharya

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Vpx rescue of HIV-1 from the antiviral state in mature dendritic cells is independent of the intracellular deoxynucleotide concentration, Christian Reinhard, Dario Bottinelli, Baek Kim, and Jeremy Luban

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Epstein-barr virus latent membrane protein 1 genetic variability in peripheral blood B cells and oropharyngeal fluids, Nicholas Renzette, Mohan Somasundaran, Frank E. Brewster, James Coderre, Eric R. Weiss, Margaret M. McManus, Thomas C. Greenough, Barbara Tabak, Manuel Garber, Timothy F. Kowalik, and Katherine Ruiz De Luzuriaga

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c-Myc inhibition prevents leukemia initiation in mice and impairs the growth of relapsed and induction failure pediatric T-ALL cells, Justine E. Roderick, Jessica M. Tesell, Leonard D. Shultz, Michael A. Brehm, Dale L. Greiner, Marian H. Harris, Lewis B. Silverman, Stephen E. Sallan, Alejandro Gutierrez, A. Thomas Look, Jun Qi, James E. Bradner, and Michelle A. Kelliher

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TNF and MAP kinase signalling pathways, Guadalupe Sabio and Roger J. Davis

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Adipocyte lineages: tracing back the origins of fat, Joan Sanchez-Gurmaches and David A. Guertin

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Adipocytes arise from multiple lineages that are heterogeneously and dynamically distributed, Joan Sanchez-Gurmaches and David A. Guertin

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A KRAS-directed transcriptional silencing pathway that mediates the CpG island methylator phenotype, Ryan W. Serra, Minggang Fang, Sung Mi Park, Lloyd Hutchinson, and Michael R. Green

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RLIM is dispensable for X-chromosome inactivation in the mouse embryonic epiblast, JongDae Shin, Mary C. Wallingford, Judith Gallant, Chelsea Marcho, Baowei Jiao, Meg Byron, Michael Bossenz, Jeanne B. Lawrence, Stephen N. Jones, Jesse Mager, and Ingolf Bach

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A separable domain of the p150 subunit of human Chromatin Assembly Factor-1 promotes protein and chromosome associations with nucleoli, Corey L. Smith, Timothy D. Matheson, Daniel J. Trombly, Xiaoming Sun, Eric Campeau, Xuemei Han, John R. Yates III, and Paul D. Kaufman

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Single point mutation in Rabenosyn-5 in a female with intractable seizures and evidence of defective endocytotic trafficking, Sylvia Stockler, Silvia Corvera, David G. Lambright, Kevin E. Fogarty, Ekaterina Nosova, Deborah Marie Leonard, Robert Steinfeld, Cameron Ackerley, Casper Shyr, Nicolas Au, Kathrin Selby, Margot van Allen, Hilary Vallance, Ron Wevers, David Watkins, David Rosenblatt, Colin J. Ross, Elizabeth Conibear, Wyeth Wasserman, and Clara van Karnebeek

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HTT-lowering reverses Huntington's disease immune dysfunction caused by NFkappaB pathway dysregulation, Ulrike Trager, Ralph Andre, Nayana Lahiri, Anna Magnusson-Lind, Andreas Weiss, Stephan Grueninger, Chris McKinnon, Eva Sirinathsinghji, Shira Kahlon, Edith L. Pfister, Roger Moser, Holger Hummerich, Michael Antoniou, Gillian P. Bates, Ruth Luthi-Carter, Mark W. Lowdell, Maria Bjorkqvist, Gary R. Ostroff, Neil Aronin, and Sarah J. Tabrizi

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The Nef-like effect of murine leukemia virus glycosylated gag on HIV-1 infectivity is mediated by its cytoplasmic domain and depends on the AP-2 adaptor complex, Yoshiko Usami, Sergei Popov, and Heinrich G. Gottlinger

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The PPARalpha-FGF21 hormone axis contributes to metabolic regulation by the hepatic JNK signaling pathway, Santiago Vernia, Julie Cavanagh, Luisa Garcia-Haro, Guadalupe Sabio, Tamera Barrett, Dae Young Jung, Jason K. Kim, Jia Xu, Hennady P. Shulha, Manuel Garber, Guangping Gao, and Roger J. Davis

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Resistance to vemurafenib resulting from a novel mutation in the BRAFV600E kinase domain, Timothy R. Wagenaar, Leyuan Ma, Benjamin P. Roscoe, Sung Mi Park, Daniel N. Bolon, and Michael R. Green

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Genetic adaptation to diet preserves longevity, Albertha J. M. Walhout

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Circulating microRNA profiles in human patients with acetaminophen hepatotoxicity or ischemic hepatitis, Jeanine Ward, Chitra Kanchagar, Isana Veksler-Lublinsky, Rosalind C. Lee, Mitchell R. McGill, Hartmut Jaeschke, Steven C. Curry, and Victor R. Ambros

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Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals, Stefan Washietl, Manolis Kellis, and Manuel Garber

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Interspecies Systems Biology Uncovers Metabolites Affecting C. elegans Gene Expression and Life History Traits, Emma Watson, Lesley T. MacNeil, Ashlyn D. Ritter, L. Safak Yilmaz, Adam P. Rosebrock, Amy A. Caudy, and Albertha J. M. Walhout

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Caenorhabditis elegans metabolic gene regulatory networks govern the cellular economy, Emma Watson and Albertha J. M. Walhout

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Determination and inference of eukaryotic transcription factor sequence specificity, Matthew T. Weirauch, Ally Yang, Mihai Albu, Atina G. Cote, Alejandro Montenegro-Montero, Philipp Drewe, Hamed S. Najafabadi, Samuel A. Lambert, Ishminder Mann, Kate Cook, Hong Zheng, Alejandra Goity, Harm van Bakel, Jean-Claude Lozano, Mary Galli, Mathew G. Lewsey, Eryong Huang, Tuhin Mukherjee, Xiaoting Chen, John S. Reece-Hoyes, Sridhar Govindarajan, Gad Shaulsky, Albertha J. M. Walhout, Francois-Yves Bouget, Gunnar Ratsch, Luis F. Larrondo, Joseph R. Ecker, and Timothy R. Hughes

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Worms, bacteria, and micronutrients: an elegant model of our diet, L. Safak Yilmaz and Albertha J. M. Walhout

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p38 MAPK regulates steroidogenesis through transcriptional repression of STAR gene, Syed Kashif Zaidi, Wen-Jun Shen, Stefanie Bittner, Alex Bittner, Mark P. McLean, Jiahuai Han, Roger J. Davis, Fredric B. Kraemer, and Salman Azhar

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Antisense piRNA amplification, but not piRNA production or nuage assembly, requires the Tudor-domain protein Qin, Zhao Zhang, Birgit S. Koppetsch, Jie Wang, Cindy Tipping, Zhiping Weng, William E. Theurkauf, and Phillip D. Zamore

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The HP1 homolog rhino anchors a nuclear complex that suppresses piRNA precursor splicing, Zhao Zhang, Jie Wang, Nadine McGinnis-Schultz, Fan Zhang, Swapnil S. Parhad, Shikui Tu, Thom Vreven, Phillip D. Zamore, Zhiping Weng, and William E. Theurkauf

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Jnk1 in murine hepatic stellate cells is a crucial mediator of liver fibrogenesis, Gang Zhao, Maximilian Hatting, Yulia A. Nevzorova, Jin Peng, Wei Hu, Mark V. Boekschoten, Tania Roskams, Michael Muller, Nikolaus Gassler, Christian Liedtke, Roger J. Davis, Francisco Javier Cubero, and Christian Trautwein

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TEMP: a computational method for analyzing transposable element polymorphism in populations, Jiali Zhuang, Jie Wang, William E. Theurkauf, and Zhiping Weng

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CRISPRseek: A Bioconductor Package to Identify Target-Specific Guide RNAs for CRISPR-Cas9 Genome-Editing Systems, Lihua Julie Zhu, Benjamin R. Holmes, Neil Aronin, and Michael H. Brodsky

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Mutations in conserved residues of the C. elegans microRNA Argonaute ALG-1 identify separable functions in ALG-1 miRISC loading and target repression, Anna Y. Zinovyeva, Samir Bouasker, Martin J. Simard, Christopher M. Hammell, and Victor R. Ambros

Publications from 2013

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Nucleosome dynamics regulates DNA processing, Nicholas L. Adkins, Hengyao Niu, Patrick Sung, and Craig L. Peterson