BMS Journal Club 2011-12

2011-12 Schedule

Journal Club Chairs: Doug Gould, PhD and Mike German, MD
Day/Time: Thursdays, 12:00-1:00 p.m. except as noted
Location: N-225, Parnassus & videoconferenced to Room GH-S271, Mission Bay
Live stream & archive available: Spring 2012. UCSF MyAccess login required.

September 08, 2011

Joan Zape (student)
"BMP4: Is it the key to generating (true) blood?"
Chiang PM, et al. Differentiation of an embryonic stem cell to hemogenic endothelium by defined factors: essential role of bone morphogenetic protein 4. Development. 2011 Jul;138(13):2833-43
Coaches: Robert Blelloch and Rong Wang

Shingo Kajimura (faculty)
"Engineering fat cells to fight obesity"
Yadav H, et al. Protection from obesity and diabetes by blockade of TGF-β/Smad3 signaling. Cell Metab. 2011 Jul 6;14(1):67-79

September 15, 2011

Robert Hesse (student)
"Deciphering the nerve dependence of limb regeneration: small but steady advances"
Yokoyama H, et al. Different Requirement for Wnt/β-Catenin Signaling in Limb Regeneration of Larval and Adult Xenopus. PLoS One. 2011;6(7):e21721
Coaches: Holger Willenbring and Ben Cheyette

Esteban Burchard (faculty)
"The Importance of Genetic ancestry in predicting drug response and clinical outcomes"
Yang JJ, et al. Ancestry and pharmacogenomics of relapse in acute lymphoblastic leukemia. Nat Genet. 2011 Mar;43(3):237-41.
Editorial: Chanock - Nat Genet. 2011 Mar;43(3):178-79.

September 22, 2011

Cameron Pitt (student)
"What Doesn't Kill You Makes You Stronger: Cancer Cells Usurp Regeneration Mechanism for Accelerated Repopulation"
Huang Q, et al. Caspase 3-mediated stimulation of tumor cell repopulation during cancer radiotherapy. Nat Med. 2011 Jul 3;17(7):860-6
Coaches: Scott Kogan and Ben Braun

Joseph Shieh (faculty)
"-CH3 In The Family Tree"
Gertz J, et al. Analysis of DNA methylation in a three-generation family reveals widespread genetic influence on epigenetic regulation. PLoS Genet. 2011 Aug;7(8):e1002228.

September 29, 2011

Samantha Bell (student)
"Weapon of Mass Destruction: A Bacterial Secretion System That Destroys Both Eukaryotic and Prokaryotic Cells Alike"
Russell AB, et al. Type VI secretion delivers bacteriolytic effectors to target cells. Nature. 2011 Jul 20;475(7356):343-7. doi: 10.1038/nature10244.
Coaches: Joanne Engel and Suzanne Noble

Natalia Jura (faculty)
"Where should we meet? - cytoskeleton-lined corridors promote membrane protein interactions and signaling"
Jaqaman K, et al. Cytoskeletal Control of CD36 Diffusion Promotes Its Receptor and Signaling Function. Cell. 2011 Aug 19;146(4):593-606.

October 06, 2011

Megan Robblee (student)
"Wasting away: Are lipases the key to cancer-associated cachexia?"
Das SK, et al. Adipose triglyceride lipase contributes to cancer-associated cachexia. Science. 2011 Jul 8;333(6039):233-8.
Coaches: Suneil Koliwad and Scott Oakes

Pamela Munster (faculty)
"Unforeseen perils in drug development"
Stransky N, et al. The mutational landscape of head and neck squamous cell carcinoma. Science. 2011 Aug 26;333(6046):1157-60.

October 13, 2011

Leslie Tong (student)
"Heart of Gold: Using gold nanowires to improve cardiac patch conduction"
Dvir T, et al. Nanowired three-dimensional cardiac patches. Nat Nanotechnol. 2011 Sep 25.
Coaches: Bruce Conklin and Anatol Kreitzer

Joachim Li (faculty)
"Stumbling upon a pedal-to-the-medal strategy for "crashing" cancer cells"
Lin JJ, et al. NEDD8-targeting drug MLN4924 elicits DNA rereplication by stabilizing Cdt1 in S phase, triggering checkpoint activation, apoptosis, and senescence in cancer cells. Cancer Res. 2010 Dec 15;70(24):10310-20

October 20, 2011

Viola Lam (student)
"Invariant natural killer T cells get nervous too"
Wong CH, et al. Functional Innervation of Hepatic iNKT Cells Is Immunosuppressive Following Stroke. Science. 2011 Sep 15.
Coaches: Matt Springer and Lewis Lanier

Ken Nakamura (faculty)
"Boosting complex I to stop Parkinson’s disease?"
Alvarez-Fischer D, et al. Engrailed protects mouse midbrain dopaminergic neurons against mitochondrial complex I insults. Nat Neurosci. 2011 Sep 4;14(10):1260-1266.

October 27, 2011

Florie Charles (student)
"Fight or Fright: Can Haunted House Destroy Your Genome?"
Hara MR, et al. A stress response pathway regulates DNA damage through β2-adrenoreceptors and β-arrestin-1. Nature. 2011 Aug 21;477(7364):349-53.
Coaches: Bradley Stohr and Edward Hsiao

Todd Nystul (faculty)
"You may be only old once, but gametes turn back the clock"
Unal E, et al. Gametogenesis eliminates age-induced cellular damage and resets life span in yeast. Science. 2011 Jun 24;332(6037):1554-7.

November 03, 2011

Marie La Russa (student)
"The RNA Da Vinci Code: Uncovering a Secret RNA Language?"
Tay Y, et al. Coding-Independent Regulation of the Tumor Suppressor PTEN by Competing Endogenous mRNAs. Cell. 2011 Oct 14;147(2):344-57. 
Coaches: Davide Ruggero and Andrei Goga

Daniel Bikle (faculty)
"Osteocalcin is a hormone and bone is the endocrine tissue secreting it"
Oury F, et al. Endocrine regulation of male fertility by the skeleton. Cell. 2011 Mar 4;144(5):796-809.

November 10, 2011

Jillian Varonin (student)
"Too Much JNK in the Trunk?"
Holzer RG, et al. Saturated Fatty Acids Induce c-Src Clustering within Membrane Subdomains, Leading to JNK Activation. Cell. 2011 Sep 30;147(1):173-84.
Coaches: Bob Farese and Suneil Koliwad

Lauren Weiss (faculty)
"General brains as specialists; autism brains as generalists"
Voineagu I, et al. Transcriptomic analysis of autistic brain reveals convergent molecular pathology. Nature. 2011 May 25;474(7351):380-4.

November 17, 2011

Daniel Nguyen (student)
"Less than 1% of ES cells get to become 100% of the germline. #Occupy Testes"
Hayashi K, et al. Reconstitution of the mouse germ cell specification pathway in culture by pluripotent stem cells. Cell. 2011 Aug 19;146(4):519-32.
Coaches: Diana Laird and Brad Stohr

Ryan Hernandez (faculty)
"Seeking the Source of our immune system:  So Long, and Thanks for All the Fish!"
Abi-Rached L, et al. The shaping of modern human immune systems by multiregional admixture with archaic humans. Science. 2011 Oct 7;334(6052):89-94.

December 01, 2011

Benjamin Cohn (student)
"Remember, remember: A nonclassical MHC-I molecule shapes mucosal memory in the gut"
Huang Y, et al. Mucosal memory CD8(+) T cells are selected in the periphery by an MHC class I molecule. Nat Immunol. 2011 Oct 2;12(11):1086-95.
Coaches: Mehrdad Matloubian and Shomyseh Sanjabi

December 08, 2011

Vien Nguyen (student)
"Who let mTOR out? Targeting neural stem cell differentiation"
Magri L, et al. Sustained Activation of mTOR Pathway in Embryonic Neural Stem Cells Leads to Development of Tuberous Sclerosis Complex-Associated Lesions. Cell Stem Cell. 2011 Nov 4;9(5):447-62.
Coaches: Tony Wynshaw-Boris and Daphne Haas-Kogan

Kevin Dumas (student)
"It's in the Sequence: MDRs call the shots on establishing methylation"
Lienert F, et al. Identification of genetic elements that autonomously determine DNA methylation states. Nat Genet. 2011 Oct 2;43(11):1091-7
Coaches: Joseph Shieh, Joseph Costello, Daniel Lim

January 05, 2012

Nicole Stone (student)
"Snakes on a hypertrophic plane"
Riquelme CA, et al. Fatty acids identified in the Burmese python promote beneficial cardiac growth. Science. 2011 Oct 28;334(6055):528-31.
Coaches: Ajay Chawla and Scott Oakes

Edward Hsiao (faculty)
"Duck Duck Goose: Causes of experimental variability"
Burga A, et al. Predicting mutation outcome from early stochastic variation in genetic interaction partners. Nature. 2011 Dec 7;480(7376):250-3.

January 12, 2012

Ivan Vujkovic-Cvijin (student)
"The good, the bad, and the commensals"
Hajishengallis G, et al. Low-abundance biofilm species orchestrates inflammatory periodontal disease through the commensal microbiota and complement. Cell Host Microbe. 2011 Nov 17;10(5):497-506.
Coaches: Susan Lynch and Peter Loomer

Tali Mazor (student)
"Attack of the subclones: RTK amplification in glioblastoma"
Snuderl M, et al. Mosaic amplification of multiple receptor tyrosine kinase genes in glioblastoma. Cancer Cell. 2011 Dec 13;20(6):810-7.
Coaches: Bill Weiss and Joanna Phillips

January 19, 2012

Jordan Mar (student)
"You (And Your Microbiome) Are What You Eat"
Wu GD, et al. Linking long-term dietary patterns with gut microbial enterotypes. Science. 2011 Oct 7;334(6052):105-8.
Coaches: Susan Lynch and Richard Locksley

Phillip Febbo (faculty)
Cai C, et al. Androgen receptor gene expression in prostate cancer is directly suppressed by the androgen receptor through recruitment of lysine-specific demethylase 1. Cancer Cell. 2011 Oct 18;20(4):457-71.

Admissions 1/26/2012 *5pm*                   

Miranda Broz (student)
"Immunity Catches a 2nd Wind: A novel antiviral strategy against chronic viral infection"
Harker JA, et al. Late interleukin-6 escalates T follicular helper cell responses and controls a chronic viral infection. Science. 2011 Nov 11;334(6057):825-9.
Coaches: Lewis Lanier and Mehrdad Matloubian

Michelle Hermiston (faculty)
"Eat it up and spit it out: Autophagy-dependent immune responses to chemotherapy"
Michaud M, et al. Autophagy-dependent anticancer immune responses induced by chemotherapeutic agents in mice. Science. 2011 Dec 16;334(6062):1573-7.

February 02, 2012

Allyson Spence (student)
"Friends forever: The Immune system, microbiome, and epithelium work together to achieve lipid homeostasis"
Shulzhenko N, et al. Crosstalk between B lymphocytes, microbiota and the intestinal epithelium governs immunity versus metabolism in the gut. Nat Med. 2011 Nov 20;17(12):1585-93.
Coaches: Anita Sil and Suneil Koliwad

Anna Gillespie (student)
"The New Social Network: a Neural Basis for Social Hierarchy"
Wang F, et al. Bidirectional control of social hierarchy by synaptic efficacy in medial prefrontal cortex. Science. 2011 Nov 4;334(6056):693-7.
Coaches: Marta Margeta and Susanna Rosi

Admissions 2/9/2012 *5pm*  

Andrea Cantu (student)
"Extreme Takeover: Home Addition"
Malanchi I, et al. Interactions between cancer stem cells and their niche govern metastatic colonization. Nature. 2011 Dec 7;481(7379):85-9.
Coaches: Thea Tlsty, Todd Nystul, and Scott Oakes

Martin McMahon (faculty)
"Splice this! -- New Mechanisms of Drug Resistance in Cancer"
Poulikakos PI, et al. RAF inhibitor resistance is mediated by dimerization of aberrantly spliced BRAF(V600E). Nature. 2011 Nov 23;480(7377):387-90.

February 16, 2012

Bevin English (student)
"Cyclic dinucleotides feel the STING"
Burdette DL, et al. STING is a direct innate immune sensor of cyclic di-GMP. Nature. 2011 Sep 25;478(7370):515-8.
Coaches: Mehrdad Matloubian and Anita Sil

Melissa Ruck (student)
"Getting tail: Neutrophils get busy with Lyn and ROS"
Yoo SK, et al. Lyn is a redox sensor that mediates leukocyte wound attraction in vivo. Nature. 2011 Nov 20;480(7375):109-12.
Coaches: Michelle Hermiston and Tony DeFranco

February 23, 2012

Amy Chen (student)
"An elegans solution to aging?"
Greer EL, et al. Transgenerational epigenetic inheritance of longevity in Caenorhabditis elegans. Nature. 2011 Oct 19;479(7373):365-71.
Coaches: Robert Blelloch and Kaveh Ashrafi

Mark Jeng (student)
"Size DOES Matter: How size can affect virulence among pathogenic microbes"
Dalia AB, et al. Minimization of bacterial size allows for complement evasion and is overcome by the agglutinating effect of antibody. Cell Host Microbe. 2011 Nov 17;10(5):486-96.
Coaches: Jeffrey Cox and Melanie Ott

March 01, 2012

Robin Kageyama (student)
"Het me baby one more time: Random X inactivation in heterozygous women reveals a mechanism for EBV susceptibility in X-linked-lymphoproliferative disease"
Palendira U, et al. Molecular pathogenesis of EBV susceptibility in XLP as revealed by analysis of female carriers with heterozygous expression of SAP. PLoS Biol. 2011 Nov;9(11):e1001187.
Coaches: Mehrdad Matloubian and Mark Ansel

Erin Oswald (student)
"Drop and give me autophagy!"
He C, et al. Exercise-induced BCL2-regulated autophagy is required for muscle glucose homeostasis. Nature. 2012 Jan 18;481(7382):511-5.
Coaches: Jay Debnath and Suzanne Noble

March 08, 2012

Emily Bradford (student)
"Fetuses: Can't live with 'em , can't live without 'em"
Rowe JH, et al. Foxp3(+) regulatory T cell expansion required for sustaining pregnancy compromises host defense against prenatal bacterial pathogens. Cell Host Microbe. 2011 Jul 21;10(1):54-64.
Coaches: Anna Bakardjiev and Abul Abbas

Nicolas Strauli (student)
"Down With the Hierarchy: Challenging the hierarchical model of the gut stem cell lineage"
Takeda N, et al. Interconversion between intestinal stem cell populations in distinct niches. Science. 2011 Dec 9;334(6061):1420-4.
Coaches: Ophir Klein and Todd Nystul

March 15, 2012

Taylor LaFlam (student)
"There Will Be Blood: Hematopoietic stem cells require endothelial and perivascular stem cell factor"
Ding L, et al. Endothelial and perivascular cells maintain haematopoietic stem cells. Nature. 2012 Jan 25;481(7382):457-62.
Coaches: Andy Leavitt and Michelle Hermiston

Daniel Hart (faculty)
"Control of Embryonic Stem Cell Lineage Commitment by Core Promoter Factor, TAF3"
Liu Z, et al. Control of embryonic stem cell lineage commitment by core promoter factor, TAF3. Cell. 2011 Sep 2;146(5):720-31.

March 22, 2012

Richard Parenteau (student)
"Wanna stay alive? Stop the zombie cell apocalypse!"
Baker DJ, et al. Clearance of p16Ink4a-positive senescent cells delays ageing-associated disorders. Nature. 2011 Nov 2;479(7372):232-6.
Coaches: Cynthia Kenyon and Bradley Stohr

April 05, 2012

Ysbrand Nusse (student)
"The Psi-chology of Mad Cows and Happy Yeast  - Prions are a Common Mechanism for Phenotypic Inheritance in Wild Yeasts"
Halfmann R, et al. Prions are a common mechanism for phenotypic inheritance in wild yeasts. Nature. 2012 Feb 15;482(7385):363-8.
Coaches: Anita Sil and Ophir Klein

Melissa McCreery (student)
"Feeding the Enemy: Bone Marrow Stroma Protect Leukemia Cells Through Supplying Cysteine"
Zhang W, et al. Stromal control of cystine metabolism promotes cancer cell survival in chronic lymphocytic leukaemia. Nat Cell Biol. 2012 Feb 19;14(3):276-86.
Coaches: Scott Kogan and Scott Oakes

April 12, 2012

Gianne Souza (student)
"Roll Out the Welcome Mat: Intestinal Microbiota Promote Enteric Virus Replication and Systemic Pathogenesis"
Kuss SK, et al. Intestinal microbiota promote enteric virus replication and systemic pathogenesis. Science. 2011 Oct 14;334(6053):249-52.
Coaches: Jeff Cox and Anna Bakardjiev

Sky Feuer (student)
"Move over menopause: will an endless supply of eggs prolong the biological clock?"
Y. White, et al. Oocyte formation by mitotically active germ cells purified from ovaries of reproductive-age women, Nature Medicine (2012) doi:10.1038/nm.2669, 26 Feb. 2012.
Coaches: Paolo Rinaudo and Marco Conti

April 19, 2012

Hanna Kuznetsov (student)
"Tumor Vasculature Dilemma: Therapeutic Loss of Pericytes Leads to Metastasis"
Cooke VG, et al. Pericyte depletion results in hypoxia-associated epithelial-to-mesenchymal transition and metastasis mediated by met signaling pathway. Cancer Cell. 2012 Jan 17;21(1):66-81.
Coaches: Jay Debnath and Diane Barber

Christine Sheridan (student)
"BCR-ABL, BIM and Beyond: germline polymorphisms affect tyrosine kinase inhibitor therapy response"
Ng KP, et al. A common BIM deletion polymorphism mediates intrinsic resistance and inferior responses to tyrosine kinase inhibitors in cancer. Nat Med. 2012 Mar 18;18(4):521-8.
Coaches: Neil Shah and Scott Oakes

April 26, 2012

Avantika Chitre (student)
"Hush Little Microbes, Don’t Go Awry: Molecular Evidence for a Link Between Circadian Rhythms & Innate Activation via TLR9"
Silver AC, et al. The circadian clock controls toll-like receptor 9-mediated innate and adaptive immunity. Immunity. 2012 Feb 24;36(2):251-61.
Coaches: Jeff Cox and Suneil Koliwad

Jenny Qi (student)
"Cellular Hunger Games: Fasting differentially weakens cancer cells"
Lee C, et al. Fasting cycles retard growth of tumors and sensitize a range of cancer cell types to chemotherapy. Sci Transl Med. 2012 Mar 7;4(124):124ra27.
Coaches: Scott Oakes and Suneil Koliwad

May 03, 2012

Darienne Myers (student)
"What Doesn't Ubiquitinate You Makes You Stronger: A Novel Mechanism for BCL6 Overexpression in Diffuse Large B-cell Lymphoma"
Duan S, et al. FBXO11 targets BCL6 for degradation and is inactivated in diffuse large B-cell lymphomas. Nature. 2012 Jan 5;481(7379):90-3.
Coaches: Averil Ma and Tony DeFranco

Meghan McKeon (student)
"Remember where you came from: Promoters influence mRNA decay"
Bregman A, et al. Promoter elements regulate cytoplasmic mRNA decay. Cell. 2011 Dec 23;147(7):1473-83.
Coaches: Anita Sil and Michael McManus

May 10, 2012

Lauren Shields (student)
"Eternal Sunshine of the Spotless Mind: Memories dwell in specific neurons"
Liu X, et al. Optogenetic stimulation of a hippocampal engram activates fear memory recall. Nature. 2012 Mar 22. doi: 10.1038/nature11028.
Coaches: Ken Nakamura and Loren Frank

Sarah Gerhart (student)
"Viruses Beware!  A new role for FAK is making RNA viruses watch their back"
Bozym RA, et al. Focal adhesion kinase is a component of antiviral RIG-I-like receptor signaling. Cell Host Microbe. 2012 Feb 16;11(2):153-66.
Coaches: Anna Bakardjiev and Diane Barber

May 17, 2012

Bianca Lee (student)
"Another Way to "Skin" Colon Cancer: EGFR feedback activation mediates drug resistance inBRAF-mutant colon cancer"
Prahallad A, et al. Unresponsiveness of colon cancer to BRAF(V600E) inhibition through feedback activation of EGFR. Nature. 2012 Jan 26;483(7387):100-3.
Coaches: Neil Shah and Trever Bivona

Raul Torres (student)
"If they say why, Y? Tell 'em that it's human nature: Evolutionary conservation on the Y-chromosome"
Hughes JF, et al. Strict evolutionary conservation followed rapid gene loss on human and rhesus Y chromosomes. Nature. 2012 Feb 22;483(7387):82-6.
Coaches: Jeff Wall and Nadav Ahituv

May 24, 2012

Katherine Farrar (student)
"Problem (re)solved! Specialized pro-resolving mediators accelerate infection resolution time and allow for lower dose antibiotics"
Chiang N, et al. Infection regulates pro-resolving mediators that lower antibiotic requirements. Nature. 2012 Apr 25;484(7395):524-8.
Coach: Judith Hellman

Amanda Paulson (student)
"Take Heart: Cardiac repair through in vivo reprogramming"
Kunhua Song, et al. Heart repair by reprogramming non-myocytes with cardiac transcription factors. Nature (2012).
Coach: Holger Willenbring

May 31, 2012

Adriana Mujal (student)
"Not Quiet on the Epidermal Front: Steady state activation of γδ T cells"
Chodaczek G, et al. Body-barrier surveillance by epidermal γδ TCRs. Nat Immunol. 2012 Feb 12;13(3):272-82.
Coaches: Max Krummel and Scott Oakes

Gorjan Hrustanovic (student)
"Leaving the party early: Early Dissemination and EMT in Pancreatic Tumor Development"
Rhim AD, et al. EMT and dissemination precede pancreatic tumor formation. Cell. 2012 Jan 20;148(1-2):349-61.
Coaches: Trever Bivona and Zena Werb

June 07, 2012

Lauren Rodda (student)
"What you don't know can still hurt you: H5N1 Avian Flu Transmissible in Mammals"
Imai, Masaki, et al. Experimental Adaptation of an Influenza H5 HA Confers Respiratory Droplet Transmission to a Reassortant H5 HA/H1N1 Virus in Ferrets. Nature. 2012 May 2.
Coaches: Jeffrey Cox and Joseph DeRisi

Stephanie Parker (student)
"Unraveling the Genome: Identification of conserved topological domains in chromatin"
Dixon JR, et al. Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature. 2012 Apr 11;485(7398):376-80.
Coaches: Miguel Ramalho-Santos and Stavros Lomvardas