GMAP and GSNAP for Genomic Sequence Alignment: Enhancements to Speed, Accuracy, and Functionality von Wu, Thomas D., Reeder, Jens, Lawrence, Michael, Becker, Gabe, Brauer, Matthew J.

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Slow growth induces heat-shock resistance in normal and respiratory-deficient yeast von Lu, Charles, Brauer, Matthew J, Botstein, David

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Coordination of growth rate, cell cycle, stress response, and metabolic activity in yeast von Brauer, Matthew J, Huttenhower, Curtis, Airoldi, Edoardo M, Rosenstein, Rachel, Matese, John C, Gresham, David, Boer, Viktor M, Troyanskaya, Olga G, Botstein, David

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Conservation of the metabolomic response to starvation across two divergent microbes von Brauer, M.J, Yuan, J, Bennett, B.D, Lu, W, Kimball, E, Botstein, D, Rabinowitz, J.D

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The STARD9/Kif16a Kinesin Associates with Mitotic Microtubules and Regulates Spindle Pole Assembly von Torres, Jorge Z., Summers, Matthew K., Peterson, David, Brauer, Matthew J., Lee, James, Senese, Silvia, Gholkar, Ankur A., Lo, Yu-Chen, Lei, Xingye, Jung, Kenneth, Anderson, David C., Davis, David P., Belmont, Lisa, Jackson, Peter K.

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A whole genome sequencing study of moderate to severe asthma identifies a lung function locus associated with asthma risk von Chang, Diana, Hunkapiller, Julie, Bhangale, Tushar, Reeder, Jens, Mukhyala, Kiran, Tom, Jennifer, Cowgill, Amy, Vogel, Jan, Forrest, William F., Khan, Zia, Stockwell, Amy, McCarthy, Mark I., Staton, Tracy L., Olsson, Julie, Holweg, Cecile T. J., Cheung, Dorothy S., Chen, Hubert, Brauer, Matthew J., Graham, Robert R., Behrens, Timothy, Wilson, Mark S., Arron, Joseph R., Choy, David F., Yaspan, Brian L.

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Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae von Bradley, Patrick H, Brauer, Matthew J, Rabinowitz, Joshua D, Troyanskaya, Olga G

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Homeostatic adjustment and metabolic remodeling in glucose-limited yeast cultures von Brauer, Matthew J, Saldanha, Alok J, Dolinski, Kara, Botstein, David

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Nutritional homeostasis in batch and steady-state culture of yeast von Saldanha, Alok J, Brauer, Matthew J, Botstein, David

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A comprehensive transcriptional portrait of human cancer cell lines von Klijn, Christiaan, Durinck, Steffen, Stawiski, Eric W, Haverty, Peter M, Jiang, Zhaoshi, Liu, Hanbin, Degenhardt, Jeremiah, Mayba, Oleg, Gnad, Florian, Liu, Jinfeng, Pau, Gregoire, Reeder, Jens, Cao, Yi, Mukhyala, Kiran, Selvaraj, Suresh K, Yu, Mamie, Zynda, Gregory J, Brauer, Matthew J, Wu, Thomas D, Gentleman, Robert C, Manning, Gerard, Yauch, Robert L, Bourgon, Richard, Stokoe, David, Modrusan, Zora, Neve, Richard M, de Sauvage, Frederic J, Settleman, Jeffrey, Seshagiri, Somasekar, Zhang, Zemin

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Constitutive NOTCH3 Signaling Promotes the Growth of Basal Breast Cancers von Choy, Lisa, Hagenbeek, Thijs J, Solon, Margaret, French, Dorothy, Finkle, David, Shelton, Amy, Venook, Rayna, Brauer, Matthew J, Siebel, Christian W

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Analysis of protein-altering variants in telomerase genes and their association with MUC5B common variant status in patients with idiopathic pulmonary fibrosis: a candidate gene se... von Dressen, Amy, Abbas, Alexander R, Cabanski, Christopher, Reeder, Janina, Ramalingam, Thirumalai R, Neighbors, Margaret, Bhangale, Tushar R, Brauer, Matthew J, Hunkapiller, Julie, Reeder, Jens, Mukhyala, Kiran, Cuenco, Karen, Tom, Jennifer, Cowgill, Amy, Vogel, Jan, Forrest, William F, Collard, Harold R, Wolters, Paul J, Kropski, Jonathan A, Lancaster, Lisa H, Blackwell, Timothy S, Arron, Joseph R, Yaspan, Brian L

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Mapping the NPHP-JBTS-MKS Protein Network Reveals Ciliopathy Disease Genes and Pathways von Sang, Liyun, Miller, Julie J., Corbit, Kevin C., Giles, Rachel H., Brauer, Matthew J., Otto, Edgar A., Baye, Lisa M., Wen, Xiaohui, Scales, Suzie J., Kwong, Mandy, Huntzicker, Erik G., Sfakianos, Mindan K., Sandoval, Wendy, Bazan, J. Fernando, Kulkarni, Priya, Garcia-Gonzalo, Francesc R., Seol, Allen D., O'Toole, John F., Held, Susanne, Reutter, Heiko M., Lane, William S., Rafiq, Muhammad Arshad, Noor, Abdul, Ansar, Muhammad, Devi, Akella Radha Rama, Sheffield, Val C., Slusarski, Diane C., Vincent, John B., Doherty, Daniel A., Hildebrandt, Friedhelm, Reiter, Jeremy F., Jackson, Peter K.

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Protection from Fas-Mediated Apoptosis by a Soluble Form of the Fas Molecule von Cheng, Jianhua, Zhou, Tong, Liu, Changdan, Shapiro, John P., Brauer, Matthew J., Kiefer, Michael C., Barr, Philip J., Mountz, John D.

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Modulation of apoptosis by the widely distributed Bcl-2 homologue Bak von Kiefer, Michael C, Brauer, Matthew J, Powers, Virginia C, Wu, Jason J, Umansky, Samuil R, Tomei, L. David, Barr, Philip J

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In silico tools for accurate HLA and KIR inference from clinical sequencing data empower immunogenetics on individual-patient and population scales von Chen, Jieming, Madireddi, Shravan, Nagarkar, Deepti, Migdal, Maciej, Vander Heiden, Jason, Chang, Diana, Mukhyala, Kiran, Selvaraj, Suresh, Kadel, Edward E., Brauer, Matthew J., Mariathasan, Sanjeev, Hunkapiller, Julie, Jhunjhunwala, Suchit, Albert, Matthew L., Hammer, Christian

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Identification of Mutant K-Ras-dependent Phenotypes Using a Panel of Isogenic Cell Lines von Vartanian, Steffan, Bentley, Carolyn, Brauer, Matthew J., Li, Li, Shirasawa, Senji, Sasazuki, Takehiko, Kim, Jung-Sik, Haverty, Pete, Stawiski, Eric, Modrusan, Zora, Waldman, Todd, Stokoe, David

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Identification and Analysis of In Vivo VEGF Downstream Markers Link VEGF Pathway Activity with Efficacy of Anti-VEGF Therapies von BRAUER, Matthew J, GUANGLEI ZHUANG, MODRUSAN, Zora, OZAWA, Tomoko, JAMES, C. David, PHILLIPS, Heidi, HALEY, Benjamin, TAM, Rachel N. W, CLERMONT, Anne C, CHENG, Jason H, YANG, Sherry X, SWAIN, Sandra M, SCHMIDT, Maike, CHEN, Daniel, SCHERER, Stefan J, KOEPPEN, Hartmut, YEH, Ru-Fang, PENG YUE, STEPHAN, Jean-Philippe, HEGDE, Priti, FERRARA, Napoleone, SINGH, Mallika, BAIS, Carlos, YAO, Jenny, XIUMIN WU, KAMINKER, Joshua S, JURINKA, Stefanie S, KOLUMAM, Ganesh, CHUNG, Alicia S, JUBB, Adrian

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Previously reported placebo-response-associated variants do not predict patient outcomes in inflammatory disease Phase III trial placebo arms von Haug-Baltzell, Asher, Bhangale, Tushar R., Chang, Diana, Dressen, Amy, Yaspan, Brian L., Ortmann, Ward, Brauer, Matthew J., Hunkapiller, Julie, Reeder, Jens, Mukhyala, Kiran, Cuenco, Karen T., Tom, Jennifer A., Cowgill, Amy, Vogel, Jan, Forrest, William F., Behrens, Timothy W., Graham, Robert R., Wuster, Arthur

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Mapping Novel Traits by Array-Assisted Bulk Segregant Analysis in Saccharomyces cerevisiae von Brauer, Matthew J, Christianson, Cheryl M, Pai, Dave A, Dunham, Maitreya J

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