DSCB 216 Journal Clubs

DSCB journal clubs are held twice a month. First and second year DSCB students are required to present once in each of the two journal clubs. Students in their third year and beyond are encouraged to attend and participate in both.


The Developmental Biology Journal Club takes place at the Mission Bay campus. This series is student-led and is intended to be a less formal environment in which students can develop their presentation skills in a group of peers. Students in their second year and beyond are encouraged to serve as “student coaches” to help first year students prepare their presentations. Papers selected for presentation in this journal club should be recent and impactful manuscripts related to developmental biology.


The Stem Cell Journal Club takes place on the Parnassus campus, with two presenters each week. Student presenters are required to work with 2 faculty coaches and any number of student coaches (usually 2-3) to prepare for their presentations. Papers presented in this series should be recent and impactful manuscripts related to stem cell biology.


DSCB Journal Club Chair: Jeffrey Bush, PhD


2017-18 Schedule

The schedule for the 2017-18 academic year will be updated here shortly. See the DSCB Journal Club Archives in the right sidebar for past years' journal clubs.

Friday, September 22, 2017 - 12:00pm - Room: N-729

Stem Cell Journal Club

Dr. Yin Shen (faculty)
“Decipher the mystery of non-coding genetic variants in open chromatin regions”
Forrest, Marc P. et al. Open Chromatin Profiling in hiPSC-Derived Neurons Prioritizes Functional Noncoding Psychiatric Risk Variants and Highlights Neurodevelopmental Loci. Cell Stem Cell. 21, 305-318 (2017).

Ryan Boileau (DSCB 2nd year student)
"Commitment tissues: Lineage infidelity of skin stem cells during wound regeneration and cancer"
Ge Y, Gomez NC, Adam RC, Nikolova M, Yang H, Verma A, Lu CP, Polak L, Yuan S, Elemento O, Fuchs E. Stem Cell Lineage Infidelity Drives Wound Repair and Cancer. Cell. 2017 May 4;169(4):636-650.e14.
Coaches: Sarah Knox and Jeffrey Bush


Wednesday, September 27, 2017 - 5:00PM-7:00PM - Room: MH-1406

Developmental Biology Journal Club

Lila Neahring (DSCB 2nd year student)
"Dermal cells of a feather flock together"
Shyer AE, Rodrigues AR, Schroeder GG, Kassianidou E, Kumar S, and Harland RM. Emergent cellular self-organization and mechanosensation initiate follicle pattern in the avian skin. Science 357, 811-815 (2017).

Bryan Marsh (DSCB 2nd year student)
"Engineering MutAnts of Neural Development and Social Behavior"
Hua, Y. et al. An Engineered orco Mutation Produces Aberrant Social Behavior and Defective Neural Development in Ants. Cell 170(4), 736-747, 10 Aug 2017.


Wednesday, October 25, 2017 - 5:00PM-7:00PM - Room: MH-1406

Developmental Biology Journal Club

Jessica Xie (DSCB 2nd year student)
"Time to grow a spine: quorum sensing and mechanical cues control oscillations of the segmentation clock "
Hubaud, A., Regev, I., Mahadevan, L., & Pourquié, O. (2017). Excitable Dynamics and Yap-Dependent Mechanical Cues Drive the Segmentation Clock. Cell, 1–15.

Ryan Boileau (DSCB 2nd year student)
"The eggstracellular matrix: Building a framework for organ growth"
Crest J, Diz-Muñoz A, Chen DY, Fletcher DA, Bilder D. Organ sculpting by patterned extracellular matrix stiffness. Elife. 2017 Jun 27;6


Wednesday, November 15, 2017 - 5:00PM-7:00PM - Room: MH-1406

Developmental Biology Journal Club

Sean de la O (DSCB 1st year student)
"Down the Tubes: Single Cell RNA Seq to Investigate Intestine Stem Cell Biology"
Yan, K.S. et al. Intestinal enteroendocrine lineage cells possess homeostatic and injury-inducible stem cell activity. Cell Stem Cell. 2017 July 6;21(1):78-90.e6.

Claire Maesner (DSCB 1st year student)
"Macho macho worms: evolution of positionally in muscle to guide regeneration"
Raz, A.A, Srivastava, M., Salvamoser, R. amd Reddoem P.W. Acoel regeneration mechanisms indicate an ancient role for muscle in regenerative patterning. Nature Communications 8, 1260. (2017).


Friday, November 17, 2017 - 12:00pm - Room: N-729

Stem Cell Journal Club

Dr. Andy Chang (faculty)
"Carbon monoxide: what doesn't kill you may protect you"
Choi, Y.K. et al. Dual effects of carbon monoxide on pericytes and neurogenesis in traumatic brain injury. 2016 Nov;22(11):1335-1341. Epub 2016 Sep 26.

Lila Neahring (DSCB 2nd year student)
"Eggs actin up: Actin protects mammalian eggs against chromosome segregation errors."
Mogessie, B. and Schuh, M. (2017). Actin protects mammalian eggs against chromosome segregation errors. Science 357, 772.
Coaches: Sophie Dumont and Marco Conti


Friday, December 1, 2017 - 12:00pm - Room: RMB Boardroom

Stem Cell Journal Club

Dr. Matt Springer (faculty)
"The Incredible Shrinking Stem Cell Pool"
Grigorian-Shamagian, L. et al. Cardiac and systemic rejuvenation after cardiosphere-derived cell therapy in senescent rats. European Heart Journal, 38(39) 2957-2967. (2017).

Bryan Marsh (DSCB 2nd year student)
"H3K4 Methylation-Dependent Memory of Somatic Cell Identity Inhibits Reprogramming and Development of Nuclear Transfer Embryos."
Hormanseder, E. et al. H3K4 Methylation-Dependent Memory of Somatic Cell Identity Inhibits Reprogramming and Development of Nuclear Transfer Embryos. Cell Stem Cell 21, 135-143. (2017).
Coaches: Susan Fisher and Diana Laird


Wednesday, December 6, 2017 - 5:00PM-7:00PM - Room: MH-1406

Developmental Biology Journal Club

Nicole Koutsodendris
"Facing the Facts: The Role of Nedd4 in Craniofacial Bone Formation"
Wiszniak, S., Harvey, N. & Schwarz, Q. Cell autonomous roles of Nedd4 in craniofacial bone formation. Developmental Biology, 410 (1), 98-107. (2015).
 


Friday, January 19, 2018 - 12:00pm - Room: RMB Boardroom

Stem Cell Journal Club

Dr. Markus Delling (faculty)
"How do cells sense mechanical force?"
Elosegui-Artola, A. et al. Force Triggers YAP Nuclear Entry by Regulating Transport across Nuclear Pores. Cell 171(6), 1397–1410. (2017).

Sean de la O (DSCB 1st year student)
"#TransformationTuesday! Alpha Cell Reprogramming to Reverse Autoimmune Diabetes"
Xiao, X. et al. Endogenous Reprogramming of Alpha Cells into Beta Cells, Induced by Viral Gene Therapy, Reverses Autoimmune Diabetes. Cell Stem Cell  22(1), 78 - 90. (2018).
Coaches: Julie Sneddon and Sarah Knox


Wednesday, January 24, 2018 - 5:00PM-7:00PM - Room: MH-1402

Developmental Biology Journal Club

Antara Rao (DSCB 1st year student)
"A Cell-Eat-Cell World: Germ Cell Remodeling Through Programmed Cannibalism"
Abdu, Y., Maniscalco, C., Heddleston, J. M., Chew, T.-L., & Nance, J. (2016). Developmentally programmed germ cell remodelling by endodermal cell cannibalism. Nature Cell Biology, 18(12), 1302–1310.

Ryan Samuel (DSCB 1st year student)
"A Nightmarish Model to Research Ancient Evolutionary Origins of Vertebrate Enteric Neurons from Trunk-Derived Neural Crest"
Green, S.A., Uy, B.R., & Bronner, M.E. (2017). Ancient evolutionary origin of vertebrate enteric neurons from trunk-derived neural crest. Nature 544, 88-91.


Wednesday, February 21, 2018 - 5:00PM-7:00PM - Room: MH-1407

Developmental Biology Journal Club

Beatriz Alvarado (DSCB 1st year student)
"Primary Cilia on the Brain: How Primary Cilia Signaling Shapes the Development of Interneuronal Connectivity"
Guo, J. et al. Primary Cilia Signaling Shapes the Development of Interneuronal Connectivity. Developmental Cell, 42 (3), 286-300. (2017).

Matthew Schmitz (DSCB 1st year student)
"Looking Fly, Cousin! A Regulatory Path to Looking Like Your Distant Relatives"
Xu, X.-R. S., Gantz, V. M., Siomava, N. & Bier, E. CRISPR/Cas9 and active genetics-based trans-species replacement of the endogenous Drosophila kni-L2 CRM reveals unexpected complexity. eLife Sciences 6, e30281. (2017).


Friday, March 16, 2018 - 12:00pm - Room: RMB Boardroom

Stem Cell Journal Club

Antara Rao (DSCB 1st year student)
"Refuse to Choose: Balancing Tumor Suppression and Regeneration in the Liver"
Zhang, S. et al. The Polyploid State Plays a Tumor-Suppressive Role in the Liver. Developmental Cell, 44(4), 447–459.e5. (2018).
Coaches: Todd Nystul and Bruce Wang

Ryan Samuel (DSCB 1st year student)
"Gut Feelings: Neural Crest Cell Implantation Restores Enteric Nervous System Function and Alters the Gastrointestinal Transcriptome in Human Tissue-Engineered Small Intestine"
Schlieve, C. R. et al. Neural Crest Cell Implantation Restores Enteric Nervous System Function and Alters the Gastrointestinal Transcriptome in Human Tissue-Engineered Small Intestine. Stem Cell Reports. 9, 883–896. (2017).
Coaches: Faranak Fattahi and Jeffrey Bush


Wednesday, March 28, 2018 - 5:00PM-7:00PM - Room: MH-1407

Developmental Biology Journal Club

Zhiling Zhao (DSCB 1st year student)
"Force Generation via beta-Cardiac Myosin, Titin, and alpha-Actinin Drives Cardiac Sarcomere Assembly from Cell-Matrix Adhesions"
Chopra, A. et al. Force Generation via beta-Cardiac Myosin, Titin, and alpha-Actinin Drives Cardiac Sarcomere Assembly from Cell-Matrix Adhesions. Developmental Cell, Volume 44 (1), 87 - 96.e5. (2018).

Elina Kostyanovskaya (DSCB 1st year student)
"When Being Mediocre Pays Off"
Farley, E.K. Syntax compensates for poor binding sites to encode tissue specificity of developmental enhancers. PNAS, 113(23), 6508-6513. (2016).


Friday, April 20, 2018 - 12:00pm - Room: RMB Boardroom

Stem Cell Journal Club

Matthew Schmitz (DSCB 1st year student)
"Through the Wire: Neural Stem Cells Receive Long-Distance Proliferation Instructions"
Bao, H. et al. Long-Range GABAergic Inputs Regulate Neural Stem Cell Quiescence and Control Adult Hippocampal Neurogenesis. Cell Stem Cell 21, 604-617.e5. (2017).
Coaches: Tomasz Nowakowski and

Beatriz Alvarado (DSCB 1st year student)
"The Primate-Specific Gene TMEM14B Marks Outer Radial Glia Cells and Promotes Cortical Expansion and Folding"
Liu, J. et al. The Primate-Specific Gene TMEM14B Marks Outer Radial Glia Cells and Promotes Cortical Expansion and Folding. Cell Stem Cell 21, 635-649 e638. (2017).
Coaches: Alex Pollen and Bjoern Schwer


Wednesday, April 25, 2018 - 5:00PM-7:00PM - Room: MH-1407

Developmental Biology Journal Club

Ugomma Eze (DSCB 1st year student)
"Insm1 Induces Neural Progenitor Delamination in Developing Neocortex via Downregulation of the Adherens Junction Belt-Specific Protein Plekha7"
Tavano, S. et al. Insm1 Induces Neural Progenitor Delamination in Developing Neocortex via Downregulation of the Adherens Junction Belt-Specific Protein Plekha7. Neuron 97(6), 1266-1314.e8. (2018).

Karishma Pratt (DSCB 1st year student)
"Whole-organism clone tracing using single-cell sequencing"
Alemany, A., Florescu, M., Baron, C.S., Peterson-Maduro, J., & van Oudenaarden, A. Whole-organism clone tracing using single-cell sequencing. Nature 556, 108-112. (2018).


Friday, May 18, 2018 - 12:00pm - Room: RMB Boardroom

Stem Cell Journal Club

Elina Kostyanovskaya (DSCB 1st year student)
"Who's steering this ship?: The role of pseudouridylation of tRNA-derived fragments in stem cells"
Guzzi, N. Pseudouridylation of tRNA-Derived Fragments Steers Translational Control in Stem Cells. Cell 173, 1-13. (2018).
Coaches: Bjoern Schwer and Barbara Panning

Ugomma Eze (DSCB 1st year student)
"Aspm knockout ferret reveals an evolutionary mechanism governing cerebral cortical size"
Johnson, M.B. et al. Aspm knockout ferret reveals an evolutionary mechanism governing cerebral cortical size. Nature 556(7701), 370-375. (2018).
Coaches: Arnold Kriegstein and Stephen Fancy


Friday, June 8, 2018 - 12:00pm - Room: RMB Boardroom

Stem Cell Journal Club

Karishma Pratt (DSCB 1st year student)
"Okay ladies, now let's get in formation: The Epigenetic State of PRDM16-Regulated Enhancers in Radial Glia Controls Cortical Neuron Position"
Baizabal, J.M. et al. The Epigenetic State of PRDM16-Regulated Enhancers in Radial Glia Controls Cortical Neuron Position. Neuron 98, 1-18. (2018).
Coaches: TBA

Zhiling Zhao (DSCB 1st year student)
"Blastocyst-like structures generated solely from stem cells"
Rivron, N.C. et al. Blastocyst-like structures generated solely from stem cells. Nature 557, 106-111. (2018).
Coaches: Barbara Panning and Todd Nystul


Friday, June 15, 2018 - 12:00pm - Room: S-214

Stem Cell Journal Club

Nicole Koutsodendris (DSCB 1st year student)
"A Breath of Fresh Air: Regeneration of the Lung Alveolus by an Evolutionary Conserved Epithelial Progenitor"
Zacharias, W.J. et al. Regeneration of the lung alveolus by an evolutionarily conserved epithelial progenitor. Nature 555, 251-255. (2018).
Coaches: Julie Sneddon and Tien Peng

Claire Maesner (DSCB 1st year student)
"Patterning in early human embryogenesis"
Martyn, I. et al. Self-organization of a human organizer by combined Wnt and Nodal signaling. Nature, preprint. (2018).
Coaches: Takashi Mikawa and Licia Selleri