Journal Club
We are excited to bring the Center for Innovative Proteomics (CIP@Cornell) Journal Club back for the 2025-26 academic year! If you are a graduate student or postdoc and are looking for an opportunity to present and engage your peers in a discussion on a recent publication in the field of proteomics, please consider signing up.
The CIP@Cornell Journal Club will hold discussions of scientific articles that present current proteomics technologies, tools and resources, and their applications in life science. Articles can be selected from a broad range of fields including but not limited to biology, bioinformatics, genetics, chemistry, biomedicine, nutrition, and plant biology.
Meetings of the Fall 2025 semester will be held monthly in 421 Weill Hall from 11am-12pm on the first Thursday of each month. All CIP@Cornell members and laboratory members are encouraged to attend!
This year our community is growing! participants from WCM and MSKCC will join us via Zoom. While the link is open to all, we encourage Ithaca attendees to join in person.
Zoom link: https://cornell.zoom.us/j/98846950224?pwd=RzMi9R4c8kPTXXxJ5xIkqrC8NzeP6y.1
Meeting ID: 988 4695 0224
Passcode: 306910
To sign up to present, follow this link and indicate a topic or article that you would like to discuss.
Questions? Reach out to Beth Ryan (er459@cornell.edu) – CIP@Cornell Journal Club Coordinator
2025-26
| DATE | PRESENTER | ARTICLE or TOPIC | LINK |
| Sep 4 |
Beth Ryan, Baskin Lab, Cornell University |
CIP@Cornell Meet & Greet! |
How thoughtful experimental design can empower biologists in the omics era | Nature Communications |
| Oct 2 | Don-Gerard Conde, Nwosu Lab, Cornell University | Rewiring of cortical glucose metabolism fuels human brain cancer growth | |
| Nov 6 | Kasia Kulej, Kentsis Lab, TCDO, MSKCC | Integrative proteogenomic approach for personalized protein mapping: prospects, challenges, and scalability bottlenecks | |
| Dec 4 | |||
| Feb 5 | |||
| Mar 5 | |||
| Apr 2 | |||
| May 7 |
2024-25
| DATE | PRESENTER | ARTICLE or TOPIC | LINK |
| Oct 10 | Yuliang Tang, Yu Lab |
Multiscale photocatalytic proximity labeling reveals cell surface neighbors on and between cells – Wells Lab, UCSF |
https://www.science.org/doi/10.1126/science.adl5763 |
| Nov 7 | Richard Gillilan, CHESS |
Proteome-Wide Assessment of Protein Structural Perturbations under High Pressure |
https://journals.aps.org/prxlife/abstract/10.1103/PRXLife.2.033011 |
| Dec 5 | Yu Sun, Yu Lab | CSF proteomics identifies early changes in autosomal dominant Alzheimer’s disease | https://www.cell.com/cell/fulltext/S0092-8674(24)00978-4 |
| Feb 6 | Goncalo Gouveia, Schroeder lab | At scale molecular formulae determination from fine structures of ultra-high-resolution LC-MS isotope patterns | |
| Mar 6 | Yu ‘Charlie’ Sun and Yugandhar Kumar, Yu Lab | a tutorial on DIA-NN & FragPipe and quantitative proteomics data evaluation | |
| Apr 3 | Yu ‘Charlie’ Sun, Yu Lab | a tutorial on how to quantitatively analyze DIA-LFQ data with and without missing values | |
| May 8 | Yugandhar Kumar, Yu Lab |
Best practices in quantitative proteomics using LFQ |
We will continue our discussion of how best to analysis DIA-LFQ data, and how to ensure our quantitation is accurate for each peptide (how many times do we need to measure each peptide during its elution?), comparison of DDA-LFQ vs DIA-LFQ… |
2023-24
| DATE | PRESENTER | ARTICLE | LINK |
| Sep 7 | Will Comstock, Smolka Lab | Rapid Characterization of Antibodies via Automated Flow Injection Coupled with Online Microdroplet Reactions and Native-pH Mass Spectrometry – Zare Lab, Stanford University | https://doi.org/10.1021/acs.analchem.2c04535 |
| Oct 5 | Darius Fox, Vacanti Lab | A Cell-Autonomous Signature of Dysregulated Protein Phosphorylation Underlies Muscle Insulin Resistance in Type 2 Diabetes – Batista TM et al., Cell Metabolism 2020 | https://www.cell.com/cell-metabolism/fulltext/S1550-4131(20)30420-4 |
| Dec 7 | Don Long, Sethupathy Lab | Slow TCA flux and ATP production in primary solid tumours but not metastases | https://www.nature.com/articles/s41586-022-05661-6 |
| Feb 1 | Mateusz Wagner, Smolka Lab | Dynamic mapping of proteome trafficking within and between living cells by TransitID – Ting Lab, Stanford University | https://doi.org/10.1016/j.cell.2023.05.044 |
| Mar 7 | Shagun Gupta, Yu Lab | Hybrid-DIA (application on studying phospho-signaling in single spheroids) | |
| May 2 | Beth Ryan, Baskin Lab | Proteomic discovery of chemical probes that perturb protein complexes in human cells | https://www.cell.com/molecular-cell/pdf/S1097-2765(23)00239-3.pdf |
| June 6 | Yiwen Wang, Yu Lab |
Ultra-fast label-free quantification and comprehensive proteome coverage with narrow-window data-independent acquisition |
https://www.nature.com/articles/s41587-023-02099-7 |