Past KEPACoffee Meetings
The past KEPACoffee meetings are recorded here.
Schedule Spring 2021
During the autumn we have our weekly meetings on Tuesday 1-3PM. If you cannot make it to your own session, please swap places with another group member.| Date | Journal club leader | Paper (or Topic) | Note |
|---|---|---|---|
| 26.01 | Eric | Feature-based molecular networking in the GNPS analysis environment | - |
| 02.02 | Tianduanyi | Prediction of drug combination effects with a minimal set of experiments | - |
| 09.02 | Minna | Comprehensive prediction of secondary metabolite structure and biological activity from microbial genome sequences | - |
| 16.02 | Juho | Fast differentiable sorting and ranking. In International Conference on Machine Learning | - |
| 23.02 | Sandor | The influence of the theory of computation on learning | - |
| 02.03 | Riikka | A Convex Parametrization of a New Class of Universal Kernel Functions | - |
| 09.03 | Maryam | Deep reinforcement learning for the control of microbial co-cultures in bioreactors | - |
| 16.03 | Eric | Research update presentation: Structured Support Vector Machines for LC-MS2 data processing | - |
| 23.03 | Tianduanyi | Drug combination prediction: current project and future perspectives | - |
| 30.03 | Ankita | FIMM Rotation Project Presentation | - |
| 06.04 | Juho | Presentation on Result Visualisation in Papers | - |
| 13.04 | Minna | Final Master's thesis presentation | - |
| 20.04 | Sandor | - | |
| 27.04 | Riikka | - | |
| 04.05 | Maryam | Multi-Agent Determinantal Q-Learning | - |
| 11.05 | Eric | - | |
| 18.05 | Tianduanyi | - | |
| 25.05 | Taneli | Presentation about his PhD work | - |
| 01.06 | Sandor | - |
Schedule Autumn 2020
During the autumn we have our weekly meetings on Friday 1-3PM. If you cannot make it to your own session, please swap places with another group member.| Date | Journal club leader | Paper (or Topic) | Note |
|---|---|---|---|
| 18.08 | Riikka | Partial trace regression and low-rank Kraus decomposition | - |
| 25.08 | Wen | Summary of the work as summer intern | - |
| 04.09 | Eric | Kernels for Sequentially Ordered Data | - |
| 11.09 | Maryam | Mean-Variance Policy Iteration for Risk-Averse Reinforcement Learning | - |
| 18.09 | Tianduanyi | Review on the drug combination tensor learning project | - |
| 25.09 | Amir | Safe Model-based Reinforcement Learning with Stability Guarantees | - |
| 02.10 | Juho | Ion mobility collision cross-section atlas for known and unknown metabolite annotation in untargeted metabolomics | - |
| 09.10 | Sandor | Kernels on Direct Sum of Vector Spaces | - |
| 16.10 | Riikka | Duality in RKHSs with Infinite Dimensional Outputs: Application to Robust Losses | - |
| 23.10 | Maryam | skipped | - |
| 30.10 | Eric | In Silico Optimization of Mass Spectrometry Fragmentation Strategies in Metabolomics | - |
| 06.11 | Tianduanyi | Research project presentation. | - |
| 13.11 | - | - | |
| 20.11 | Amir | Algorithms for CVaR Optimization in MDPs | - |
| 27.11 | Lisa | Final presentation of her research project: Time-series Analysis for Metabolomics | - |
| 04.12 | Sandor | Presentation: "Optimization as Dynamic Process" (based on this and this paper) | - |
| 11.12 | Riikka | - | |
| 18.12 | Maryam | Shared Experience Actor-Critic forMulti-Agent Reinforcement Learning | - |
Schedule Spring and Summer 2020
During the summer we have our weekly meetings on Tuesdays 2-4PM only featuring the weekly updates. There is no fixed schedule Journal clubs or presentations.| Date | Journal club leader | Paper (or Topic) | Note |
|---|---|---|---|
| 21.01 | Maryam | Towards a fully automated algorithm drivenplatform for biosystems design | - |
| 28.01 | Riikka | Cross-view kernel transfer | - |
| 04.02 | Viivi | To Understand Deep Learning We Need To Understand Kernel Learning | - |
| 11.02 | Sandor | Presentation: Learning with Manifolds | - |
| 18.02 | Eric | Presentation: MS2 and RT score integration | - |
| 25.02 | Tianduanyi | Research project presentation | - |
| 03.03 | Juho | - | Canceled |
| 10.03 | Sandor | - | Canceled |
| 17.03 | Maryam | - | Canceled |
| 24.03 | Riikka | - | Canceled |
| 31.03 | Sandor | Presentation: Autoencoder and Bottlenecks | - |
| 07.04 | Juho | A consistent regularization approach for structured prediction | - |
| 14.04 | Maryam | Presentation: Reinforcement Learning for Biosystems Design | - |
| 21.04 | Riikka | Interpretable genotype-to-phenotype classifiers with performance guarantees | - |
| 28.04 | Viivi | Tensor Canonical Correlation Analysis for Multi-View Dimension Reduction | - |
| 05.05 | Eric | Multilabel Structured Output Learning with Random Spanning Trees of Max-Margin Markov Networks | - |
| 12.05 | Tianduanyi | - | |
| 19.05 | Sandor | Presentation: Learning Class Relations - Projection Operator Kernel | - |
| 26.05 | Juho | Presentation: Towards Linear Work Multi-output Kernel Machines | - |
| from 05.06 | - | Only weekly updates |
Schedule Autumn 2019
Below is a schedule for the Autumn 2019. If you cannot make it to your own session, please swap places with another group member.All meetings will be in meeting room B337 on Tuesday from 2-4PM unless otherwise announced.
| Date | Journal club leader | Paper (or Topic) | Note |
|---|---|---|---|
| 13.08 | Juho | Brouard et al. Improved Small Molecule Identification through Learning Combinations of Kernel Regression Models. Metabolites, 9(8), p.160. | - |
| 20.08 | Jane & Aker | Summer project presentation | - |
| 27.08 | Luc & Antoine | Summer project presentation | Room: A346 |
| 03.09 | No KEPACOffee | - | |
| 10.09 | Maryam | Presentation: Metabolite Network Fine-tuning using Reinforcement Learning | - |
| 17.09 | Sandor | Presentation: Factorization Machines | - |
| 24.09 | Eric | Presentation: Probabilistic Framework for Tandem Mass Spectrometry and Retention Time Data Fusion for Metabolite Identification (Summary of research done in Glasgow) | - |
| 01.10 | Kai | Presentation: Judging the book by it's cover: Dereplicating similar compounds with tandem mass spectrometry | - |
| 08.10 | Tianduanyi | - | |
| 15.10 | Viivi | Memory Efficient Kernel Approximation | - |
| 22.10 | Juho | Distribution-free uncertainty quantification for kernel methods by gradient perturbations | - |
| 29.10 | Sandor | Differentiable Game Mechanics | - |
| 05.11 | Eric | Understanding and correcting pathologies in the training of learned optimizers | - |
| 12.11 | Maryam | Presentation: Metabolite Network Fine-tuning using Reinforcement Learning (an update) | - |
| 19.11 | Viivi | Towards Practical Alternating Least-Squares for CCA | - |
| 26.11 | - | AI DAY | |
| 03.12 | Tianduanyi | - | |
| 10.12 | Kai | Presentation: Classes from Masses | - |
| 17.12 | Juho | Large-Scale Sparse Kernel Canonical Correlation Analysis | - |
Schedule Spring 2019
Below is a schedule for the Spring 2019. If you cannot make it to your own session, please swap places with another group member.All meetings will be in meeting room A142 on Wednesday from 4-6PM unless otherwise announced.
| Date | Journal club leader | Paper (or Topic) | Note |
|---|---|---|---|
| 23.01 | Tolou | Tensor Canonical Correlation Analysis for Multi-View Dimension Reduction | - |
| 30.01 | Anna | IDG-DREAM Drug-Kinase Binding Prediction Challenge: an update | - |
| 06.02 | Sandor | Presentation: Factorization Machines | - |
| 13.02 | Markus | Presentation: Spectral Kernels | - |
| 20.02 | Tianduanyi | Presentation: Kernel-based Machine Learning Methods for Drug-Target Interaction Prediction | - |
| 27.02 | Rohit | Presentation: Robustness and Extreme Multi-label Classification | - |
| 06.03 | Heli | Master's Thesis Presentation | - |
| 13.03 | Eric | Accelerating Metabolite Identification in Natural Product Research | - |
| 20.03 | Vilma | The re-emergence of natural products for drug discovery in the genomics era | - |
| 27.03 | Maryam | Presentation: Genetic Interventions using Reinforcement Learning | - |
| 03.04 | Viivi | A Linear-Time Kernel Goodness-of-Fit Test | - |
| 10.04 | Tolou | Master's Thesis Presentation | - |
| 17.04 | Sandor | A Theory of Learning with Corrupted Labels | - |
| 24.04 | Markus | - | - |
| 01.05 | NO MEETING | NO MEETING | Public Holiday: Vappu |
| 08.05 | Maryam | Presentation: Research project updates | - |
| 15.05 | Eric | Presentation: Retention Order Prediction using Multiple Kernel Learning | - |
| 22.05 | Vilma | Master's Thesis Presentation | - |
| 29.05 | - | - | Only weekly updates! |
| 05.06 | Viivi | ICML poster pitch rehearsal | - |
| 12.06 | Heli | Presentation: Predictive modeling of anticancer efficacy of drug combinations using factorization machines | - |
| 19.06 | Anna | Results of the IDG-DREAM Drug-Kinase Binding Prediction Challenge | - |
| 26.06 | Tianduanyi | - | - |
Schedule Autumn 2018
Below is a schedule for the Autumn 2018. If you cannot make it to your own session, please swap places with another group member.All meetings will be in meeting room B347 on Thursday from 2-4PM unless otherwise announced.
| Date | Journal club leader | Topic | Note |
|---|---|---|---|
| 16.08 | Sandor | - | - |
| 23.08 | Antoine | Presentation: Metabolite Identification | - |
| 30.08 | Celine | The weighted Kendall and high-order kernels for permutations. (ICML) | - |
| 06.09 | Markus | - | - |
| 13.09 | Maryam | - | - |
| 20.09 | Viivi | An Adaptive Test of Independence with Analytic Kernel Embeddings | room change to A346 |
| 27.09 | Parisa | KONG: Kernels for ordered-neighborhood graphs | - |
| 04.10 | NO MEETING | - | CS-Forum held by Anna's opponent |
| 11.10 | NO MEETING | - | CS Research Day from 12-15 |
| 18.10 | Heli | Factorization Machines, Higher-Order Factorization Machines | - |
| 25.10 | Vilma | Presentation: Tandem mass spectra (MS2) to bio-activity prediction | - |
| 01.11 | Sandor | Infinite-Task Learning with RKHSs | - |
| 08.11 | Markus | Presenation: Stein Gradient Descent | - |
| 15.11 | Maryam | e-PAL: An Active Learning Approach to the Multi-Objective Optimization Problem | - |
| 22.11 | Anna | Presenation: Dream Challenge | - |
| 29.11 | Viivi | Stochastic Approximation for Canonical Correlation Analysis | - |
| 06.12 | NO MEETING | - | Independence day |
| 13.12 | Eric | Sparse Learning over Infinite Subgraph Features | - |
| 20.12 | NO MEETING | - | - |
Schedule Spring 2018
Below is a schedule for the Spring 2018. If you cannot make it to your own session, please swap places with another group member.All meetings will be in meeting room A142 on Thursday from 2-4PM unless otherwise announced.
- Students (< Master) should always give presentations about their work.
- Seniors (>= Master) can choose between Journal Club, presentation, travel report, etc. ...
| Date | Leader | Event-type | Content |
|---|---|---|---|
| 25.01 | Zheyang | Presentation | |
| 01.02 | Sandor | Journal Club, Presentation, ... | |
| 08.02 | Eric | Journal Club, Presentation, ... | |
| 15.02 | Celine | Journal Club, Presentation, ... | |
| 22.02 | Tolou | Presentation | |
| 01.03 | Anna | Journal Club, Presentation, ... | |
| 08.03 | -- No meeting -- | Women in Data Science conference | |
| 15.03 | Parisa | Journal Club, Presentation, ... | |
| 22.03 | Viivi | Journal Club, Presentation, ... | |
| 29.03 | Markus | Journal Club, Presentation, ... | |
| 05.04 | Sandor | Journal Club, Presentation, ... | |
| 12.04 | Juho | Journal Club, Presentation, ... | |
| 19.04 | Viivi | Journal Club, Presentation, ... | |
| 26.04 | Eric | Journal Club, Presentation, ... | |
| 03.05 | Heli | Presentation | |
| 10.05 | -- No meeting -- | -- Ascension day! -- | |
| 17.05 | Parisa | Journal Club, Presentation, ... | |
| 24.05 | Markus | Journal Club, Presentation, ... | |
| 31.05 | Fabio | Presentation | |
| 07.06 | Sandor | Journal Club, Presentation, ... | |
| 14.06 | -- No meeting -- | Aalto ceremony week | |
| 21.06 | -- No meeting -- | Eve of midsummer eve | |
| 28.06 | -- No meeting -- | KEPACO Summer retreat |
Schedule Autumn 2017
Below is a schedule for the Autumn 2017. If you cannot make it to your own session, please swap places with another group member.All meetings will be in meeting room B337 on Friday from 2-4PM unless otherwise announced.
| Date | Leader | Event-type | Content |
|---|---|---|---|
| 25.08 | Juho | Journal-club | Structured Prediction Theory Based on Factor Graph Complexity |
| 01.09 | Viivi | Presentation | Canonical Correlation Methods |
| 08.09 | Eric | Journal-club | Stochastic Structured Prediction under Bandit Feedback |
| 15.09 | Sandor | Journal-club | Kernel functions based on triplet similarity comparisons |
| 22.09 | Tolou | Presentation | Summary of the summer-research |
| 29.09 | Heli | Journal-club | Multiple kernel learning with hybrid kernel alignment maximization |
| 13.10 | Celine | Presentation | Transfer Learning for Metabolite Identification |
| 20.10 | Markus | Journal-Club | |
| 27.10 | Sandor | Presentation | Relational Learning |
| 03.11 | Eric | Presentation | Ranking Support Vector Machine |
| 10.11 | Viivi | Journal-Club | Sparse kernel canonical correlation analysis for discovery of nonlinear interactions in high-dimensional data |
| 17.11 | Tolou | Journal-Club | |
| 24.11 | Anna | Presentation | Drug Target Interaction |
| 01.12 | Parisa | Presentation | |
| 08.12 | Celine | Journal-Club | EasyMKL: a scalable multiple kernel learning algorithm |
| 15.12 | Markus | Presentation | NIPS Overview |
Schedule Spring 2017
Schedule Autumn 2016
Schedule Spring 2016
Schedule Autumn 2015
Schedule Spring 2015
Schedule Autumn 2014
Below is a tentative schedule for the Autumn. Let Juho know if you cannot make it to your own "pulla" or "lead reader" session, or if you cannot make most of the other sessions (it does not matter if you miss one or two), then we will reschedule. All meetings at meeting room A328 at 2.00pm unless otherwise announced.Schedule Summer 2014
Below is a tentative schedule for the Summer. Let Juho know if you cannot make \ it to your own "pulla" session, or if you cannot make most of the other session\ s (it does not matter if you miss one or two), then we will reschedule. All meetings at meeting room A328 at 2.30pm unless otherwise announced.| Date | "Pulla" responsible | Reading group paper | |
|---|---|---|---|
| 4.6. | Juho | Kadri et al.:A Generalized Kernel Approach to Structured Output Learning ,ICML 2013 | |
| 11.6. | Elena | Integrated Module and Gene-Specific Regulatory Inference Implicates Upstream Signaling Networks, PLOS Computational Biology | |
| 19.6. | Su | Learning structured models with AUC loss and its generalisations AISTATS 2014 | |
| 25.6. | Celine | Multi-label Classification via Feature-aware Implicit Label Space Encoding, ICML 2014 | |
| 2.7. | Anna | A community effort to assess and improve drug sensitivity prediction algorithms, Nature Biotechnology 2014 | |
| 9.7. | Summer break | paper | |
| 16.7 | Summer break | paper | |
| 23.7 | Summer break | paper | |
| 30.7 | Summer break | paper | |
| 6.8 | Jana | paper | |
| 13.8 | Clemens | paper | |
| 20.8 | Maja | Beyond L2-Loss Functions for Learning Sparse Models (Clemens) | |
| 27.8 | Jinmin (note: Jinmin's presentation is given in the summer intern seminar from 13-14) | A Divide-and-Conquer Solver for Kernel Support Vector Machines (Juho) |
Schedule Spring 2014
Schedule Autumn 2013
Below is a tentative schedule for the Autumn. Let Juho know if you cannot make it to your own "pulla" session, or if you cannot make most of the other sessions (it does not matter if you miss one or two), then we will reschedule. All meetings at meeting room A328 unless otherwise announced.| Date | "Pulla" responsible | Presentation |
|---|---|---|
| 23.8 | Juho | Xu, Huan, Constantine Caramanis, and Shie Mannor. "Sparse algorithms are not stable: A no-free-lunch theorem." Pattern Analysis and Machine Intelligence, IEEE Transactions on 34, no. 1 (2012): 187-193. |
| 30.8 | Jian | |
| 6.9 | Jana | |
| 13.9 | Elena | |
| 20.9 | No meeting | (ICS Department get-together) |
| 27.9 | No meeting | (ICS Recreation Day) |
| 4.10 | Jefrey | |
| 11.10 | Su | |
| 18.10 | No meeting | (ICS Department get-together) |
| 25.10 | No meeting | (Juho abroad) |
| 1.11 | Anna | |
| 8.11 | Nicole | |
| 15.11 | No meeting | (ICS Department get-together) |
| 22.11 | Huibin | |
| 29.11 | Viivi | |
| 6.12 | No meeting | (Finnish independence day) |
| 13.12 | Juho | |
| 20.12 | No meeting | (ICS department get-together) |