Publications

8-channel Tx dipole and 20-channel Rx loop coil array for MRI of the cervical spinal cord at 7 Tesla
Nibardo Lopez Rios
Kyle M. Gilbert
Daniel Papp
Gaspard Cereza
Alexandru Foias
D. Rangaprakash
Markus W. May
Bastien Guerin
Lawrence L. Wald
Boris Keil
Jason P. Stockmann
Robert L. Barry
Julien Cohen-Adad
2023-02-09
bioRxiv (preprint)
doi.org
Restoring the missing person to personalized medicine and precision psychiatry
Ana Gómez-Carrillo
Vincent Paquin
Guillaume Dumas
Laurence J. Kirmayer
2023-02-09
Frontiers in Neuroscience (published)
doi.org
DynGFN: Towards Bayesian Inference of Gene Regulatory Networks with GFlowNets
Lazar Atanackovic
Alexander Tong
Jason Hartford
Leo J Lee
Bo Wang
Yoshua Bengio
One of the grand challenges of cell biology is inferring the gene regulatory network (GRN) which describes interactions between genes and th… (see more)eir products that control gene expression and cellular function. We can treat this as a causal discovery problem but with two non-standard challenges: (1) regulatory networks are inherently cyclic so we should not model a GRN as a directed acyclic graph (DAG), and (2) observations have significant measurement noise, so for typical sample sizes there will always be a large equivalence class of graphs that are likely given the data, and we want methods that capture this uncertainty. Existing methods either focus on challenge (1), identifying cyclic structure from dynamics, or on challenge (2) learning complex Bayesian posteriors over DAGs, but not both. In this paper we leverage the fact that it is possible to estimate the"velocity"of gene expression with RNA velocity techniques to develop an approach that addresses both challenges. Because we have access to velocity information, we can treat the Bayesian structure learning problem as a problem of sparse identification of a dynamical system, capturing cyclic feedback loops through time. Since our objective is to model uncertainty over discrete structures, we leverage Generative Flow Networks (GFlowNets) to estimate the posterior distribution over the combinatorial space of possible sparse dependencies. Our results indicate that our method learns posteriors that better encapsulate the distributions of cyclic structures compared to counterpart state-of-the-art Bayesian structure learning approaches.
2023-02-08
ArXiv (preprint)
arxiv.org
arxiv.org
Spectroscopy of CASSOWARY gravitationally-lensed galaxies in SDSS: characterisation of an extremely bright reionization-era analog at z = 1.42
Ramesh Mainali
Daniel P Stark
Tucker Jones
Richard S Ellis
Yashar Hezaveh
Jane R Rigby
We present new observations of sixteen bright (r = 19 − 21) gravitationally lensed galaxies at z ≃ 1 − 3 selected from the CASSOWARY s… (see more)urvey. Included in our sample is the z = 1.42 galaxy CSWA-141, one of the brightest known reionization-era analogs at high redshift (g=20.5), with a large sSFR (31.2 Gyr−1) and an [OIII]+Hβ equivalent width (EW[OIII] + Hβ=730 Å) that is nearly identical to the average value expected at z ≃ 7 − 8. In this paper, we investigate the rest-frame UV nebular line emission in our sample with the goal of understanding the factors that regulate strong CIII] emission. Whereas most of the sources in our sample show weak UV line emission, we find elevated CIII] in the spectrum of CSWA-141 (EWCIII]=4.6±1.9 Å) together with detections of other prominent emission lines (OIII], Si III], Fe II⋆, Mg II). We compare the rest-optical line properties of high redshift galaxies with strong and weak CIII] emission, and find that systems with the strongest UV line emission tend to have young stellar populations and nebular gas that is moderately metal-poor and highly ionized, consistent with trends seen at low and high redshift. The brightness of CSWA-141 enables detailed investigation of the extreme emission line galaxies which become common at z > 6. We find that gas traced by the CIII] doublet likely probes higher densities than that traced by [OII] and [SII]. Characterisation of the spectrally resolved Mg II emission line and several low ionization absorption lines suggests neutral gas around the young stars is likely optically thin, potentially facilitating the escape of ionizing radiation.
2023-02-08
Monthly Notices of the Royal Astronomical Society (published)
doi.org
arxiv.org
DeltaShield: Information Theory for Human- Trafficking Detection
Catalina Vajiac
Meng-Chieh Lee
Aayushi Kulshrestha
Sacha Lévy
Namyong Park
Andreas Olligschlaeger
Cara Jones
Reihaneh Rabbany
Christos Faloutsos
2023-02-07
ACM Transactions on Knowledge Discovery from Data (published)
doi.org
Dealing With Non-stationarity in Decentralized Cooperative Multi-Agent Deep Reinforcement Learning via Multi-Timescale Learning
Hadi Nekoei
Akilesh Badrinaaraayanan
Amit Sinha
Mohammad Amin Amini
Janarthanan Rajendran
Aditya Mahajan
Sarath Chandar
2023-02-06
ArXiv (preprint)
doi.org
arxiv.org
A three-state coupled Markov switching model for COVID-19 outbreaks across Quebec based on hospital admissions (preprint)
Dirk Douwes-Schultz
Alexandra M. Schmidt
Yannan Shen
David Buckeridge
2023-02-05
ArXiv (preprint)
arxiv.org
arxiv.org
A Minimax Approach Against Multi-Armed Adversarial Attacks Detection
Federica Granese
Marco Romanelli
Siddharth Garg
Pablo Piantanida
2023-02-04
ArXiv (preprint)
doi.org
arxiv.org
AmbieGen tool at the SBST 2022 Tool Competition
Dmytro Humeniuk
Giuliano Antoniol
Foutse Khomh
AmbieGen is a tool for generating test cases for cyber-physical systems (CPS). In the context of SBST 2022 CPS tool competition, it has been… (see more) adapted to generating virtual roads to test a car lane keeping assist system. AmbieGen leverages a two objective NSGA-II algorithm to produce the test cases. It has achieved the highest final score, accounting for the test case efficiency, effectiveness and diversity in both testing configurations.
2023-02-03
Proceedings of the 15th Workshop on Search-Based Software Testing (published)
doi.org
Better Training of GFlowNets with Local Credit and Incomplete Trajectories
Ling Pan
Nikolay Malkin
Dinghuai Zhang
Yoshua Bengio
Generative Flow Networks or GFlowNets are related to Monte-Carlo Markov chain methods (as they sample from a distribution specified by an en… (see more)ergy function), reinforcement learning (as they learn a policy to sample composed objects through a sequence of steps), generative models (as they learn to represent and sample from a distribution) and amortized variational methods (as they can be used to learn to approximate and sample from an otherwise intractable posterior, given a prior and a likelihood). They are trained to generate an object
2023-02-03
ArXiv (preprint)
doi.org
arxiv.org
Normalizing Flow Ensembles for Rich Aleatoric and Epistemic Uncertainty Modeling
Lucas Berry
David Meger
2023-02-02
ArXiv (preprint)
doi.org
arxiv.org
A Survey on Compositional Generalization in Applications
Baihan Lin
Djallel Bouneffouf
Irina Rish
2023-02-02
ArXiv (preprint)
doi.org
arxiv.org