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Topics 2010-2011

Date Presenter Paper

Organizational meeting
Leichtag 3A05 - 8 am

Introductions, GTP Student Advising Committee, Choose Fall topic, How to choose and critique a paper.

Fall 2010: Methods for Genetics and Genomics

Date Presenter Paper
10/6/10 Taylor Bright Grossman et al. (2010) A Composite of Multiple Signals Distinguishes Causal Variants in Regions of Positive Selection. Science 327: 883-886
10/13/10 Britt Flaherty Nagalakshmi et al. (2008) The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing. Science 320: 1344-1349.
10/20/10 David Kochman

Caterina et al. (1997) The capsaicin receptor: a heat-activated ion channel in the pain pathway. Nature 389: 816-824.

Fenczik et al. (1997) Complementation of dominant suppression implicates CD98 in integrin activation. Nature390: 81-85.

10/27/10 Dr. Fred Bonkovsky Ethics discussion: Drug trials and access in genetically-focused disease. PLX 4032 and Iressa. NY Times article
11/3/10 Deanna Stevens Frøkjær-Jensen et al. (2008) Single-copy insertion of transgenes in Caenorhabditis elegans. Nature Genetics 40: 1375-1383.
11/10/10 Jeff Nelson Shukla et al. (2009) Precise genome modification in the crop species Zea mays using zinc-finger nucleases. Nature 459: 437-441.
11/17/10 Pagkapol Pongsawakul Liu et al. (2008) A fasting inducible switch modulates gluconeogenesis via activator/coactivator exchange. Nature456: 269-273.
12/1/10 Erilynn Russo

Al-Anzi et al. (2009) Obesity-Blocking Neurons in Drosophila. Neuron 63: 329-341.

Pfeiffer et al. (2010) Refinement of Tools for Targeted Gene Expression in Drosophila. Genetics 186: 735-755.

12/8/10 Emily Witham Watakabe et al. (2010) Fluorescent in situ hybridization technique for cell type identification and characterization in the central nervous system. (Review) Methods 52: 367-374

Gordon Bean

Bandyopadhyay et al. (2010) Rewiring of Genetic Networks in Response to DNA Damage. Science 330: 1385-1389.
Winter Break

Winter 2011: Genetics and Nuclear Architecture

Date Presenter Paper
1/5/11 Anne Conway

Haithcock et al. (2005) Age-related changes of nuclear architecture in Caenorhabditis elegans. PNAS 102: 16690-16695.

Commentary: Wilson (2005) Integrity matters: linking nuclear architecture to lifespan. PNAS 102: 18767-18768

1/12/11 Emma Garren Gilchrist et al. (2010) Pausing of RNA polymerase II disrupts DNA-specified nucleosome organization to enable precise gene regulation. Cell 143: 540-551.
1/19/11 Mark Moyle D'Angelo et al. (2009) Age-dependent deterioration of nuclear pore complexes Causes a loss of nuclear integrity in postmitotic cells. Cell 136: 284–295.
1/26/11 Michael Lam Xu and Cook (2008) Similar active genes cluster in specialized transcription factories. J. Cell Biology 181: 615-23.
2/2/11 Chloe Rivera Schoenfelder et al. (2010) Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells. Nature Genetics 42: 53-62.
2/9/11 Tom Stark Guelen et al. (2008) Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions. Nature 453: 948-951.
2/16/11 Melissa Wilbert O'Sullivan et al. (2010) Reduced histone biosynthesis and chromatin changes arising from a damage signal at telomeres.Nature Structural & Molecular Biology 17: 1218–1225.
2/23/11 Susan Zhang Mao et al. (2010) Direct visualization of the co-transcriptional assembly of a nuclear body by noncoding RNAs. Nature Cell Biology 13: 95-101.
3/2/11 Allan Acab Skene et al. (2010) Neuronal MeCP2 Is Expressed at Near Histone-Octamer Levels and Globally Alters the Chromatin State. Molec. Cell 37: 457-468.

Alexa Clemmons

Ishii et al. (2008) Heterochromatin Integrity Affects Chromosome Reorganization After Centromere Dysfunction.Science 321: 1088-1091.
Spring Break

Spring 2011: Behavioral Genetics

Date Presenter Paper
3/30/11 Dena Plemmons and Michael Kalichman Ethics discussion: Incidental findings in medical genetics
4/6/11 Jennifer Higginbotham Liu et al. (2011) Molecular regulation of sexual preference revealed by genetic studies of 5-HT in the brains of male mice. Nature in press. DOI 10.1038/nature09822
4/13/11 Jason Lehman Mejias et al. (2011) Gain-of-function glutamate receptor interacting protein 1 variants alter GluA2 recycling and surface distribution in patients with autism. PNAS 108: 4920-4925.
4/20/11 Sol Reyna Kohatsu et al. (2011) Female Contact Activates Male-Specific Interneurons that Trigger Stereotypic Courtship Behavior in Drosophila. Neuron 69: 498-508.
4/27/11 Suzy Szumowski Bevilacqua et al. (2011) A population-specific HTR2B stop codon predisposes to severe impulsivity. Nature 468: 1061-1066.
5/4/11 Tiffany Taylor He et al. (2010) The Transcriptional Repressor DEC2 Regulates Sleep Length in Mammals. Science 325: 866-870.
5/11/11 Grace Woodruff Garfield et al. (2011) Distinct physiological and behavioural functions for parental alleles of imprinted Grb10. Nature 469: 534–538
5/18/11 David Kochman Semmelhack and Wang (2009) Select Drosophila glomeruli mediate innate olfactory attraction and aversion. Nature 459: 218-223.
5/25/11 Erilynn Russo Heinrichsen

Recober et al. (2009) Role of Calcitonin Gene-Related Peptide in Light-Aversive Behavior: Implications for Migraine. J. Neurosci. 29: 8798–8804.

6/1/11 Amanda Roberts (TSRI and La Jolla Neuroscience Blueprint Behavioral Testing Core) Experimental design, behavioral tests, and validity. Example: animal models of autism. Review:
Silverman et al. (2010) Nat. Rev. Neurosci. 11: 490-502.

Faculty: Bruce Hamilton (Program Director), Richard Kolodner (Associate Director), Frank Furnari, Trey Ideker, Alysson Muotri, Emily Troemel, Joe Vinetz, Elizabeth Winzeler, Ben Yu, Fred Bonkovsky, Michael Kalichman, Dena Plemmons (Research Ethics Program).