Topics 2013-2014
Date | Presenter | Paper |
10/2/13 |
Organizational meeting |
Introductions, GTP Student Advising Committee, Choose Fall topic, How to choose and critique a paper. |
Fall 2013: Regeneration
Date | Presenter | Paper |
10/9/13 | Jackie Benthuysen | Takeo et al. (2013) Wnt activation in nail epithelium couples nail growth to digit regeneration. Nature 499, 228-232. |
10/16/13 | Gregory Goldgof | Lopez-Garcia et al. (2010) Intestinal Stem Cell Replacement Follows a Pattern of Neutral Drift. Science 330, 822-825. |
10/23/13 | Larry Du | Zhu et al. (2012) Activation of germline-specific genes is required for limb regeneration in the Mexican axolotl. Dev. Biol. 370, 42–51. |
10/30/13 | Lauren Fong | Chen et al. (2012) An RNA interference screen uncovers a new molecule in stem cell self-renewal and long-term regeneration. Nature 485, 104-108. |
11/6/13 | Jonathan Grinstein | Zhang et al. (2013) In vivo cardiac reprogramming contributes to zebrafish heart regeneration. Nature 498, 497-501. |
11/13/13 | Amanda Mason | Liu et al. (2013) Reactivating head regrowth in a regeneration-deficient planarian species. Nature 500, 81-84. |
11/21/13 | Panid Sharifnia | Zou et al. (2013) Developmental Decline in Neuronal Regeneration by the Progressive Change of Two Intrinsic Timers. Science 340, 372-376. |
Thanksgiving | ||
12/4/13 | Chris DeBoever | Paige et al. (2012) A Temporal Chromatin Signature in Human Embryonic Stem Cells Identifies Regulators of Cardiac Development. Cell 151, 221-232. |
12/11/13 | Larry Goldstein, Elizabeth Winzeler, Gene Yeo | Responsible Conduct Panel Discussion: Reading, Writing and Refereeing papers in an era of online supplements. |
Winter Break | Selection of Winter topic. |
Winter 2014: Single Cell Anaylses
Date | Presenter | Paper |
1/8/14 | Bruce Hamilton, Elizabeth Winzeler |
Responsible Conduct Panel Discussion: Reproducibility Background Reading:
|
1/15/14 | Naomi Frank |
Moignard et al. (2013) Characterization of transcriptional networks in blood stem and progenitor cells using high-throughput single-cell gene expression analysis. Nature Cell Biology 4, 363-372. |
1/22/14 | Babette Hamerling | Gole et al. (2013) Massively parallel polymerase cloning and genome sequencing of single cells using nanoliter microwells. Nature Biotechnology31, 1126–1132. |
1/29/14 | Fernando Martinez | Lovatt et al. (2014) Transcriptome in vivo analysis (TIVA) of spatially defined single cells in live tissue. Nature Methods doi:10.1038/nmeth.2804 |
2/5/14 |
Micah Manary |
Pamp et al. (2012) Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB). Genome Research 22, 1107-1119. |
2/12/14 | Cynthia Hsu | Navin et al. (2011) Tumour evolution inferred by single-cell sequencing.Nature 472, 90–94. |
2/19/14 |
Gabriel Pratt |
Deng et al. (2014) Single-Cell RNA-Seq Reveals Dynamic, Random Monoallelic Gene Expression in Mammalian Cells. Science 343, 193-196. |
2/26/14 | Eric Scott | McConnell et al. (2013) Mosaic Copy Number Variation in Human Neurons.Science 342, 632-637. |
3/5/14 | Michael Yu | Jaitin et al. (2014) Massively Parallel Single-Cell RNA-Seq for Marker-Free Decomposition of Tissues into Cell Types. Science 343, 776-779. |
3/12/14 |
Anthony Schmitt |
Nagano et al. (2013) Single-cell Hi-C reveals cell-to-cell variability in chromosome structure. Nature 502, 59–64. |
3/19/14 |
Sophia Española |
Wu et al. (2014) Quantitative assessment of single-cell RNA-sequencing methods. Nature Methods 11, 41-46. |
Spring Break |
Spring 2014: Genetics of Aging
Date | Presenter | Paper |
4/2/14 | Bernardo Lara | Carnemolla et al. (2014) Contesting the dogma of an age-related heat shock response impairment: implications for cardiac-specific age-related disorders.Human Molecular Genetics online ahead of print, doi: 10.1093/hmg/ddu073 |
4/9/14 | Kevin Ross | Lu et al. (2014) REST and stress resistance in ageing and Alzheimer’s disease. Nature 507, 448-454. |
4/16/14 | Alexandra Buckley | Ross et al. (2013) Germline mitochondrial DNA mutations aggravate ageing and can impair brain development. Nature 501, 412-415. |
4/23/14 | Megan Chu | Zhang et al. (2013) Direct and Indirect Gene Regulation by a Life-Extending FOXO Protein in C. elegans: Roles for GATA Factors and Lipid Gene Regulators. Cell Metabolism 17, 85-100. |
4/30/14 | Asa Gustafsson and Richard Kolodner |
Responsible Conduct Panel Discussion: Mentor and Trainee Responsibilities |
5/2/14 | GTP RETREAT | Sanford Consortium for Regenerative Medicine Auditorium |
5/7/14 |
Victoria Doroski | Bernardes de Jesus et al. (2012) Telomerase gene therapy in adult and old mice delays aging and increases longevity without increasing cancer. EMBO Molec. Med. 4, 691-704. |
5/14/14 | Genevieve Ryan | Chang and Guarente (2013) SIRT1 Mediates Central Circadian Control in the SCN by a Mechanism that Decays with Aging. Cell 153, 1448–1460. |
5/21/14 |
Sam Stoner | Florian et al. (2013) A canonical to non-canonical Wnt signalling switch in haematopoietic stem-cell ageing. Nature 503, 392-396. |
5/28/14 | Bruce Hamilton | Career planning: Implementing the Individual Development Plan NIH Guide Notice / Sally Rockey's blog / UCSD Prototype (docx) myIDP website |
Faculty: Bruce Hamilton (Program Director), Richard Kolodner (Associate Director), Elizabeth Winzeler, Ben Yu, Neil Chi, Larry Goldstein, Bing Ren, Maike Sander, Gene Yeo, Asa Gustafsson.