Quantitative Biology Seminar Series
The qBio seminars will be from 11-12pm twice a month. Seminars are currently in-person at NSB 1205, but may occasionally be online.
*The Joint BioSci/qBio Seminars will be held in Kavli Auditorium.
If you would like to get announcements about qBio seminars, subscribe to the listserv below.
| Date | Speaker | Affiliation | Title |
10/02/2024Host: Sheng Zhong (BioSci; held in Kavli) |
Tao Wang | UTSW | Mapping Cellular Interactions From Spatially Resolved Transcriptomics Data |
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10/09/2024 Host: Tzer Han |
Christina Hueschen | UCSD | Actin Self-Orangization in Gliding Parasitic Cells |
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10/23/2024 Host: Suckjoon Jun |
Hyun Youk | UMass Chan Medical School | Slowing or Suspending Cellular Life Reveals Irreversibility of Cell Viability Loss |
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10/28/2024 Monthly qBio Student Presentations (12:30 PM in Bonner Hall 2130)
|
Keaton Holt |
Lab: Koslover Department: Physics |
Characterizing the Spread of Intraorganellar Biomolecules in Mitochondrial Networks |
|
Shiqi Liu |
Lab: Terence Hwa's lab Department: Physics |
Emergence of large-scale mechanical spiral waves in bacterial living matter | |
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11/06/2024 Host: Mattia, Tzer Han (BioSci;held in Kavli)
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Stephanie Lindsey | UCSD | Assessing Cardiac Function and Treatment Strategies from Development to the Pediatric Population |
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11/20/2024 Host: Lena Koslover
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Milo Lin |
UT Southwestern |
Mapping Information Networks in Proteins |
| 11/25/2024 Monthly qBio Student Presentations (12:30 PM in Bonner Hall 2130) |
Alex Plum |
Lab: Mattia Serra's Group Department: Physics |
Control of Modular Tissue Flows Shaping the Embryo in Avian Gastrulation
|
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Harish Kannan |
Lab: Hwa Lab Department: Physics |
Pattern Formation in dense Colonies of Cross-feeding Bacteria | |
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12/04/2024 |
Mike Shelley | Flatiron/Courant | Active Structures and Flows in Living Cells |
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12/11/2024 Host: Nigel Goldenfeld
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Joshua Weitz | University of Maryland | Eco-Evolutionary Dynamics of Viruses and their Microbial Hosts |
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01/15/2025 Host: Dominik Wodarz |
James Glazier | Indiana University Bloomington | TBD |
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01/29/2025 Host: |
Padmini Rangamani |
UCSD |
TBD |
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02/12/2025 Host: Lena Koslover |
Lishibanya Mohapatra | Rochester Institute of Technology | TBD |
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02/26/2025 Host: Tzer Han |
Stefano di Talia |
Duke University |
TBD |
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03/12/2025 Host: Tzer Han |
Hongbo Zhao | UCSD | TBD |
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04/02/2025 |
Howard Stone | Princeton University | TBD |
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04/16/2025 |
Dyche Mullins | UCSF | TBD |
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04/23/2025 Monthly qBio Student Presentations (Location TBD) |
TBD | ||
| TBD | |||
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04/30/2025 Host: TBD |
TBD | TBD | TBD |
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05/07/2025 Host: Nan Hao (BioSci;held in Kavli) |
Hongjie Li | Baylor School of Medicine | TBD |
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05/21/2025 Host: TBD |
TBD | TBD | TBD |
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05/28/2025 Monthly qBio Student Presentations (Location TBD) |
TBD | ||
| TBD | |||
|
06/04/2025 Host: TBD |
TBD | TBD | TBD |
Subscribe to qBio listserv
Seminar archive
2023-24
| Date | Speaker | Affiliation | Title |
10/09/2023Host: Lena Koslover |
Tzer Han Tan | UCSD | Chiral and Odd Dynamics in Living Matter |
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10/23/2023 Host: Mattia Serra |
Cristina Marchetti | UCSB | Rheology of Dense Biological Tissue |
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10/30/2023 Monthly qBio Student Presentations (12:30 PM in Bonner Hall 2130)
|
Haochen Fu (Suckjoon Jun Lab) |
UCSD Physics | Robust Control of DNA Replication Initiation in Escherichia Coli. |
|
Maya Rowell (Stephanie Fraley Lab) |
UCSD Bioengineering | Development of a Fluidic Model System for Studying Cancer Vasculogenic Mimicry | |
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11/06/2023 Host: Terry Hwa |
Urlich Gerland | TU Munich | Spatially Orchestrated Reaction Kinetics in Biological Systems |
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11/13/2023 Host: Tzer Han Tan |
GATech |
The Blob: Topologically Entangled Living Matter |
|
| 11/27/2023 Monthly qBio Student Presentations (12:30 PM in Bonner Hall 2130) |
Shalni Kumar (Jeff Hasty Lab) |
UCSD Bioengineeering |
Exploiting Heterogeneity for Dynamic Microbial Population Adaptation
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Livia Songster (Reck-Peterson Lab) |
UCSD Biological Sciences | The Role of Peroxisome Hitchhiking in Fungal Secondary Metabolism | |
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12/04/2023 Host: Nigel Goldenfeld |
Will Ratcliff | GATech | Exploring the origin of multicellularity in real time: what we've learned from 5,000 generations of laboratory evolution |
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01/22/2024 |
Seugeun Oh | UCSD Physics | Exploring Pathophysiology via Single Cell Weight and BMI Analysis |
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01/29/2024 Monthly qBio Student Presentations (12:30 PM in Mayer Hall 4322) |
Joe Solvason (Emma Farley Lab) | UCSD Bioinformatics and Systems Biology | Dissecting the Otx-a enhancer |
| Gabriel Mullin-Manzanarez (Terry Hwa Lab) | UCSD Biological Sciences | Proteome Remodeling and Survival in Starving Bacteria | |
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02/05/2024 Host: Tzer Han Tan |
Suraj Shankar | University of Michigan | Wet, active solids: Physics and Physiology |
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02/26/2024 Host: Nigel Goldenfeld |
Erwin Frey | Ludwig Maximilian University of Munich | Geometry in Motion: from protein patterns to cell-like function |
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03/11/2024 |
Elizabeth Villa | UCSD Department of Molecular Biology |
Opening Windows into the Cell: Bringing Structure to Cell Biology using in-cellulo cryo-Electron Microscopy
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04/1/2024 Host: Mattia Serra |
Allon Klein | Harvard Medical School | Learning dynamics from single cell snapshots: lessons from physics |
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04/15/2024 Host: Suckjoon Jun
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Joshua Shaevitz | Princeton | Magic or mechanics? Understanding dynamics in living systems |
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04/22/2024 Monthly qBio Student Presentations (12:30 PM in Mayer Hall 4322) |
Sahana Kuthyar (Allen Lab) | UCSD Biological Sciences | Microbiome-mediated resistance is shaped by invader identity and host domestication status |
| Todd Chou (Süel Lab) | UCSD Biological Sciences | A segmentation clock patterns cellular differentiation in a bacterial biofilm | |
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04/29/2024 Host: Terry Hwa |
Jan Skotheim | Stanford | Cell Size Control |
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05/13/2024 Host: Lena Koslover |
Shankar Mukherji | WashU | Building the cell from unreliable parts: coordinating stochastic organelle biogenesis with cellular growth |
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05/20/2024 Monthly qBio Student Presentations (12:30 PM in Bonner Hall 2130) |
Sreejith Santhosh (Mattia Serra Lab) | UCSD Physics | Patterning mechanisms in pre-gastrulation chick embryo |
| Camilo Rey-bedon (Hasty Lab) | UCSD Biological Sciences | A Micro-physiological Window to Explore Bacterial Therapeutics in the Tumor Microenvironment | |
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06/03/2024 Host: Lena Koslover |
Natalia Komarova | UCSD Math | Mathematical Methods in Evolution and Medicine |
2022-23
| Date | Speaker | Affiliation | Title |
10/03/2022Host: Terry Hwa |
Jing Yan | Yale University | Bacterial Biofilms as Shelf-Shaping Active Matter |
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10/17/2022 Host: David Kleinfled |
Johnatan Aljadeff | UCSD Neurobiology | Shallow Networks Run Deep: How Peripheral Preprocessing Facilitates Odor Classification |
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10/24/2022 Monthly qBio Student Presentations (12:30 PM in MHA-2702)
|
Josh Borin (Justin Meyer Lab) |
UCSD Biology | Bacteria-Phage Coevolution Rapidly Drives the Emergence of Multi-Scale Networks |
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Palka Puri (Yonathan Aljadeff Lab) |
UCSD Physics | Odor Processing by Specialized Interactions at the Olfactory Periphery | |
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10/31/2022 Host: Mattia Serra
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Alessandro Mongera | Harvard Medical School, University College London | Mechanical Regulation of Vertebrate Axis Elongation |
| 11/21/2022 Monthly qBio Student Presentations (12:30 PM in MHA-2702) |
Ximena Garcia Arceo (Brian Zid Lab) |
UCSD Chemistry & Biochemistry | Translation and Diffusion Kinetics Combine to Regulate mRNA Localization in Yeast |
|
Xiang Ji (David Kleinfeld Lab) |
UCSD Phyiscs | Drawing and Analyzing the Plumbing Diagram of the Brain | |
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01/09/2023 Host: Lena Koslover |
Jun Allard | UC Irvine | Biophysics of T Cell Activation on Fluid Dynamic, Gene Regulatory, and Ultra-long Timescales |
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01/23/2023 Monthly qBio Student Presentations (12:30 PM in MHA-2702) |
Granton Jindal | UCSD | Quantitative Biology of Developmental Abnormalities Caused by Mutations in the Ras/ERK Pathway |
| TBA | TBA | TBA | |
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01/30/2023 Host: Suckjoon Jun |
Achillefs Kapanidis | University of Oxford | Unraveling Transcription Mechanisms via Single-Molecule Imaging |
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02/13/2023 Host: Jack Reddan |
Corlett Wood | University of Pennsylvania | The Conflict Between Your Feet: Interactions Between Mutualists and Parasites on the Same Host |
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02/27/2023 Host: Wouter-Jan Rappel |
Wallace Marshall | UC San Francisco | How Cells Measure - the Flagellar Length Control System |
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03/13/2023 Host: Nigel Goldenfeld |
Orit Peleg | University of Colorado, Boulder | Physical Computation in Insect Swarms |
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04/10/2023 Host: Mattia Serra |
Boris Shraiman | UC Santa Barbara | Geometry and Mechanics in Epithelial Morphogenesis |
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04/17/2023 Monthly qBio Student Presentations (12:30 PM in the 7th Floor Urey Hall Coffee Area) |
Joe Solvason | Emma Farley Lab | Dissection of the Otx-a Enhancer |
| Pin-Chung Cheng | Kun Zhang Lab | RETrace: Retrospective Single-cell Lineage Tracing with Microsatellites |
|
|
04/24/2023 Host: Ghita Guessous |
Julia Schwartzman | University of Southern California | Collective Carbon Harvesting in Marine Bacteria |
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05/08/2023 Host: Lena Koslover |
Eleni Katifori | University of Pennsylvania | Loops in Living Networks |
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05/15/2023 Monthly qBio Student Presentations (12:30 PM in Bonner Hall 2130) |
Sarah Ardell | Kryazhimskiy Lab | The Yeast Mutational Landscape Changes Predictably Across Strains and Environments |
| Tyler Goshia | Fraley Lab | Development of a Rapid Cross-Kingdom Molecular Assay for Broad-Based Screening and Quantification of Viable Bacterial, Viral, and Fungal Pathogens | |
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05/22/2023 on ZOOM at 10am PST Host: Beverly Naigles |
Kirsty Wan | University of Exeter | Physical and Embodied Intelligence at the Ciliate Surface |
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06/05/2023 Host: Suckjoon Jun |
John Glass | JCVI | Design, Construction, and Analysis of a Synthetic Minimal Bacterial Cell |
2021-22
| Date | Speaker | Affiliation | Title |
10/04/2021Host: Terry Hwa |
Mattia Serra | UC San Diego | A Mechanochemical Model for Primitive Streak Formation Recapitulates Distinct Vertebrate Gastrulation Modes |
|
10/18/2021 Host: Scott Rifkin |
Michael Savageau | UC Davis | What Can Molecular Mechanisms Tell Us About The Distribution of Mutant Phenotypes and Their Evolution? |
|
10/25/2021 Monthly qBio Student Presentations |
Beverly Naigles (Hao Lab) |
UCSD Biology | Tracking the Dynamics of Immune Responses at a Single-Cell Level |
|
Avaneesh Narla (Hwa Lab) |
UCSD Physics | How Do Populations Spread? | |
|
11/01/2021 Hosts: Sahana Kuthyar, Aspen Reese |
Brandon Ogbunu | Yale | Using Protein Space to Explore Evolvability, Epistasis, and Druggability |
|
11/15/2021 Host: Suckjoon Jun |
Jade Wang | University of Wisconsin-Madison | From 1940 to Present: What Bacteria Tell Us About the Mechanisms of Phenotypic and Genotypic Changes |
| 11/22/2021 Monthly qBio Student Presentations | Jacob Robertson (Hwa Lab) | UCSD Biology | Copiotroph’s delight: Growth and Aggregation of Alteromonas sp. 4B03 on Peptides and Amino Acids |
|
Ryan Thiermann (Jun Lab) |
UCSD Physics | Do Bacterial Cells Allocate Resources to Maximize Growth? | |
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11/29/2021 Hosts: Beverly Naigles, Terry Hwa |
Amy Schmid | Duke University | Gene Regulatory Networks Enable Resilience to Extreme Stress |
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01/10/2022 Hosts: Terry Hwa |
Robert Signer | UC San Diego | Hematopoietic Stem Cell Regulation by the Proteostasis Network |
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01/24/2022 Host: Lev Tsimring |
Lingchong You | Duke University | Antibiotic Response and Gene Transfer in Microbial Communities |
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02/07/2022 Host: Sergey Kryazhimskiy |
Kerry Geiler-Samerotte | Arizona State University | The Genotype - Phenotype - Phenotype - Phenotype Map |
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02/14/2022 Host: Terry Hwa |
Seppe Kuehn | University of Chicago | The Structure-Function Problem in Microbial Communities |
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02/28/2022 Host: Todd Chou |
Dr. Markita del Carpio Landry | UC Berkeley | Nanomaterials Enable Delivery of Genetic Material Without Transgene Integration in Mature Plants |
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04/04/2022 Host: Terry Hwa |
Johannes Schoeneberg | UC San Diego | 4D Cell Biology: Adaptive Optics Lattice Light-Sheet Imaging and AI-Powered Big Data Processing of Live Stem Cell-Derived Organoids |
|
04/11/2022 qBio Monthly Student Presentations |
Tim Tyree (Rappel Lab) | UC San Diego | Cross-Modal Decoding of Individual Identity in the Primate Hippocampus |
| Shayna Holness (Hasty Lab) | UC San Diego | Protein Aggregation in the Context of Yeast Aging | |
|
05/02/2022 Hosts: Livia Songster, Sam Reck-Peterson |
Prachee Avasthi | Dartmouth College |
Mechanisms of Membrane Reorganization During Early Ciliary Growth |
|
05/09/2022 Host: Beverly Naigles |
Rosie Alegado | University of Hawaii - Manoa | Resistance and Resilience Patterns of Subtropical Island Estuarine Microbial Assemblages in Response to Seasonal Forcing |
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05/16/2022 Host: Gurol Suel |
Ido Golding | University of Illinois-Urbana - Champaign | Viral Decision Making: Some Recent Findings and Ongoing Work |
|
05/23/2022 qBio Monthly Student Presentations |
Saransh Umale (Jun Lab) | UC San Diego | TBA |
| Gabriel Manzanarez (Hwa Lab) | UC San Diego | TBA |
2020-21
| Date | Speaker | Affiliation | Title |
|
10/12/2020 |
Kim Cooper | UC San Diego |
How (and why) the jerboa got its long feet |
|
10/26/2020 |
Michael Desai | Harvard University | Barcoded bulk QTL mapping in budding yeast |
|
11/02/2020 Monthly qBio Student Presentations
|
Alex Harvey (Zid Lab) |
UCSD Chem/Biochem |
Translation Elongation Control During Stress in Yeast |
| Kaito Kakuchi (Suel Lab) |
UCSD Biology |
An Integrate-and-Fire Mechanism Drives Germination of Bacterial Spores |
|
| Fred Zhou (Sharpee Lab) |
UCSD Biology |
Hyperbolic Geometry of Olfactory Space |
|
| 11/16/2020 (recording) | Gaudenz Danuser |
UT Southwestern | Cell morphological control of oncogenic signals |
| 11/23/2020 | Vadim Gladyshev | Harvard Medical School | Quantifying and manipulating the aging process |
|
11/30/2020 Monthly qBio Student Presentations |
Vinson Lam (Villa Lab) |
UCSD Biology | Circadian Chromosome Compaction in Cyanobacteria |
Julie Roberts (Hao Lab) |
UCSD Biology | Sir2 Regulates Proteostasis During Aging | |
|
Nathan Palmer (Mali Lab) |
UCSD Biology | Immune-Orthogonal AAV/Cas9 Combinations Circumvent the Immune Response to Gene Therapy | |
| 12/7/2020 | Ming Chen Hammond | University of Utah | Discovering signaling enzymes through in vivo biochemistry experiments |
|
1/11/2021 |
Christine Jacobs-Wagner | Stanford University | Cell Size and Chromosome Folding: From Scaling Laws to Cellular Physicochemical Properties |
|
1/25/2021 |
Steph Weber | McGill University | No membrane, No problem: Condensing Bacterial Organelles |
| 2/1/2021 Monthly qBio Student Presentations (recording) |
Bijie Ren (Mayfield Lab) | UCSD Biology | Metabolic-Protein Secretion Modeling for Chlamydomonas Reinhardtii |
| Marco Man-Ho Tang (Rappel Lab) | UCSD Physics | Cellular Memory in Eukaryotic Chemotaxis Depends on the Background Chemoattractant Concentration | |
| Anamika Agrawal (Koslover Lab) |
UCSD Physics | Optimizing Mitochondrial Maintenance in Neurons |
|
|
2/22/2021 |
Hunter Fraser | Stanford University | Using Hybrids to Explore the Evolution of Complex Traits |
|
3/1/2021 Monthly qBio Student Presentations |
Tapan Goel (Shoetz-Collins Lab) | UCSD Physics | Non-Linear Elastodynamics of Hydra Mouth Opening |
| Matt Croxford (Villa Lab) | UCSD Biology | Compensating for Missing Wedge Artifacts in Cryo-Electron Tomography with Deconvolution | |
| Chao Shi (Chao Lab) | UCSD Biology | Distribution of Gene Products in Bacteria Aging Landscape | |
|
3/8/2021 |
Rachel Green | Johns Hopkins University | Ribosome Collisions Drive Cell Fate Decisions |
|
4/5/2021 |
Trent Northen | Lawrence Berkeley National Lab | Deconstructing the Role of Exudate Chemistry in Selecting Beneficial Rhizosphere Microbes |
|
4/12/2021 Monthly qBio Student Presentations |
Huan-Yu Kuo (Kryzashimskiy Lab) |
UCSD Physics | Laboratory Experiment to Measure Random Mutations in Adaptive Evolution |
| Aravind Karanam (Rappel Lab) | UCSD Physics | Improved Chemotaxis through Repeated Stimulation | |
|
4/19/2021 |
James O'Dwyer | University of Illinois at Urbana-Champaign | Resource Exchange, Stability and Coarse-Graining |
|
5/3/2021 |
Corina Tarnita | Princeton University | Self-organization and robustness in biological systems |
|
5/10/2021 Monthly qBio Student Presentations |
Ghita Guessous (Hwa Lab) |
UCSD Physics | Chitin Degradation by Vibrio sp. 1A01 |
| Jessica Bloom (Rifkin Lab) | UCSD Biology | Developmental System Drift in Caenorhabditis Nematodes and their Hybrids | |
| 5/17/2021 | Allyson Sgro | Boston University | Connecting Intracellular Signaling Dynamics to Multicellular Decision Making |
|
5/24/2021 |
Dianne Newman | Caltech | Context Matters: Agathokakological Roles for Redox-Active "Antibiotics" |
2019-20
| Date | Speaker | Affiliation | Title |
|
10/7/2019 |
Elena Koslover | UC San Diego | Navigating the maze: intracellular transport through organelle interactions and networks |
| 10/21/2019 | Arun Raj | University of Pennsylvania | Single cell analysis of therapy resistance in cancer |
| 11/4/2019 | Jian Liu |
Johns Hopkins University | Dividing up the genome: Do bacteria use a phase transition? |
| 11/18/2019 | Fitnat Yildiz | UC Santa Cruz | Mechanisms and Consequences of Biofilm Formation |
| 12/2/2019 | Vernita Gordon | University of Texas, Austin | Bacterial Mechanosensing: the Force will be with you, always |
| 1/13/2020 | Ethan Garner | Harvard University | How bacteria grow in defined rod shapes and control their rate of growth. |
| 1/27/2020 | Karmella Haynes | Emory University | Chromatin epigenetic engineering: combining synthetic biology with molecular bioinformatics. |
| 2/10/2020 | Rebecca Heald | UC Berkeley | Fun experiments you can only do with frogs |
| 2/24/2020 | Dan Fletcher | UC Berkeley | TBD |
| 3/9/2020 | Mike Rust | University of Chicago | Bayesian Modeling of the Cyanobacterial Clock |
| 4/6/2020 | Christine Jacobs-Wagner | Stanford University | Postponed due to COVID-19 |
| 5/4/2020 | Michael Desai | Harvard University | Postponed due to COVID-19 |
| 5/18/2020 | Corina Tarnita | Princeton University | Postponed due to COVID-19 |
| 6/1/2020 | Rachel Green | Johns Hopkins University | Postponed due to COVID-19 |
2018-19
| Date | Speaker | Affiliation | Title |
| 11/5/2018 | Jianzhi Zhang | University of Michigan | Multi-environment fitness landscapes of a tRNA gene |
| 11/26/2018 | Diana Bautista | UC Berkeley | Itchy and scratchy: molecular mechanism of itch and pain |
| 12/3/2018 | Jeff Hasty | UC San Diego | Engineered gene circuits: From clocks to synchronized delivery |
| 1/15/2019 | Ning Jenny Jiang | University of Texas, Austin | High-throughput T cell repertoire profiling enabled systems immunology and immune engineering |
|
1/28/2019 |
Elaine Hsiao | UCLA | Host-microbiome interactions through the serotonergic system |
| 2/25/2019 | Michael Fischbach | Stanford University | Small molecules from the human microbiota |
| 3/11/2019 | Sean Brady | Rockefeller University | Watch your step, there is new chemistry everywhere |
| 4/8/2019 | Chunhui Chris Xu | Cornell University | Pushing the boundaries of multiphoton brain imaging |
| 4/22/2019 | Angela DePace | Harvard University | Precision and plasticity in animal transcription |
| 5/6/2019 | Sriram Kosuri | UCLA | Combining DNA synthesis, multiplexed reporters, and genome engineering to better understand human gene regulation and protein function |
| 5/20/2019 | Oleg Igoshin | Rice University | Pattern formation and multicellular self-organization behaviors in myxobacteria biofilms |
| 6/3/2019 | Brian Zid | UC San Diego | Factors impacting the localization and translation of nuclear-encoded mitochondrial mRNAs |
