Publications
For a full publications list with citation counts, please see my Google Scholar page.
Publications
A Loopy Framework and Tool for Real-time Human-AI Music Collaboration
Sageev Oore*, Finlay Miller*, Chandramouli Shama Sastry, Sri Harsha Dumpala, Marvin F. da Silva, Daniel Oore, Scott C. Lowe
Artificial Intelligence for Music: Where Creativity Meets Computation Workshop, NeurIPS 2025
BugSR: Improving Tiny Instance Segmentation on the MassID45 Dataset
John Quinto, Scott C. Lowe, Akshita Gupta, Johanna Orsholm, Prajakta Darade, Iuliia Zarubiieva, Brendan Furneaux, Tommi Mononen, Tomas Roslin, Graham W. Taylor
Imageomics: Discovering Biological Knowledge from Images Using AI Workshop, NeurIPS 2025
BarcodeMamba+: Advancing State-Space Models for Fungal Biodiversity Research
Tiancheng Gao, Scott C. Lowe, Brendan Furneaux, Angel X. Chang, Graham W. Taylor
Imageomics: Discovering Biological Knowledge from Images Using AI Workshop, NeurIPS 2025
Understanding and Improving the Shampoo Optimizer via Kullback-Leibler Minimization
Wu Lin, Scott C. Lowe, Felix Dangel, Runa Eschenhagen, Zikun Xu, Roger B. Grosse
OPT 2025: Optimization for Machine Learning Workshop, NeurIPS 2025
Hyperbolic Multimodal Representation Learning for Biological Taxonomies
ZeMing Gong, Chuanqi Tang, Xiaoliang Huo, Nicholas Pellegrino, Austin Wang, Graham W. Taylor, Angel X. Chang, Scott C. Lowe†, Joakim Bruslund Haurum†
2nd Beyond Euclidean Workshop: Hyperbolic and Hyperspherical Learning for Computer Vision Workshop, ICCV 2025
A multi-modal dataset for insect biodiversity with imagery and DNA at the trap and individual level
Johanna Orsholm*, John Quinto*, Hannu Autto, Gaia Banelyte, Nicolas Chazot, Jeremy deWaard, Stephanie deWaard, Arielle Farrell, Brendan Furneaux, Bess Hardwick, Nao Ito, Amlan Kar, Oula Kalttopää, Deirdre Kerdraon, Erik Kristensen, Jaclyn McKeown, Tommi Mononen, Ellen Nein, Hanna Rogers, Tomas Roslin, Paula Schmitz, Jayme Sones, Maija Sujala, Amy Thompson, Evgeny V. Zakharov, Iuliia Zarubiieva, Akshita Gupta, Scott C. Lowe, Graham W. Taylor
Imageomics: Discovering Biological Knowledge from Images Using AI Workshop, NeurIPS 2025
Optimizing Image Capture for Computer Vision-Powered Taxonomic Identification and Trait Recognition of Biodiversity Specimens
Alyson East, Elizabeth G. Campolongo, Luke Meyers, S.M. Rayeed, Samuel Stevens, Iuliia Zarubiieva, Isadora E. Fluck, Jennifer C. Girón, Maximiliane Jousse, Scott Lowe, Kayla I. Perry, Isabelle Betancourt, Noah Charney, Evan Donoso, Nathan Fox, Kim J. Landsbergen, Ekaterina Nepovinnykh, Michelle Ramirez, Parkash Singh, Khum Thapa-Magar, Matthew Thompson, Evan Waite, Tanya Berger-Wolf, Hilmar Lapp, Paula Mabee, Graham Taylor, Sydne Record
Methods in Ecology and Evolution, 00, 1–16, 2025
Enhancing DNA Foundation Models to Address Masking Inefficiencies
Monireh Safari*, Pablo Millan Arias*, Scott C. Lowe, Lila Kari, Angel X. Chang, Graham W. Taylor
Artificial Intelligence for Nucleic Acids (AI4NA) Workshop, ICLR 2025
CLIBD: Bridging Vision and Genomics for Biodiversity Monitoring at Scale
ZeMing Gong, Austin T. Wang, Xiaoliang Huo, Joakim Bruslund Haurum, Scott C. Lowe, Graham W. Taylor, Angel X. Chang
The Thirteenth International Conference on Learning Representations (ICLR 2025)
BenthicNet: A global compilation of seafloor images for deep learning applications
Scott C. Lowe*, Benjamin Misiuk*, Isaac Xu*, Shakhboz Abdulazizov, Amit R. Baroi, Alex C. Bastos, Merlin Best, Vicki Ferrini, Ariell Friedman, Deborah Hart, Ove Hoegh-Guldberg, Daniel Ierodiaconou, Julia Mackin-McLaughlin, Kathryn Markey, Pedro S. Menandro, Jacquomo Monk, Shreya Nemani, John O'Brien, Elizabeth Oh, Luba Y. Reshitnyk, Katleen Robert, Chris M. Roelfsema, Jessica A. Sameoto, Alexandre C.G. Schimel, Jordan A. Thomson, Brittany R. Wilson, Melisa C. Wong, Craig J. Brown†, Thomas Trappenberg†
Scientific Data 12 (1), 230, 2025
BIOSCAN-5M: A Multimodal Dataset for Insect Biodiversity
Zahra Gharaee*, Scott C. Lowe*, ZeMing Gong*, Pablo Millan Arias*, Nicholas Pellegrino, Austin T. Wang, Joakim Bruslund Haurum, Iuliia Zarubiieva, Lila Kari, Dirk Steinke†, Graham W. Taylor†, Paul Fieguth†, Angel X. Chang†
Advances in Neural Information Processing Systems 37 (NeurIPS 2024)
System 2 Reasoning Capabilities Are Nigh
Scott C. Lowe
The First Workshop on System-2 Reasoning at Scale, NeurIPS 2024
Towards a Taxonomy Machine: A Training Set of 5.6 Million Arthropod Images
Dirk Steinke, Sujeevan Ratnasingham, Jireh Agda, Hamzah Ait Boutou, Isaiah C.H. Box, Mary Boyle, Dean Chan, Corey Feng, Scott C. Lowe, Jaclyn T.A. McKeown, Joschka McLeod, Alan Sanchez, Ian Smith, Spencer Walker, Catherine Y.-Y. Wei, Paul D.N. Hebert
Data 9 (11), 122, 2024
Hierarchical multi-label classification with missing information for benthic habitat imagery
Isaac Xu, Benjamin Misiuk, Scott C. Lowe, Martin Gillis, Thomas Trappenberg, Craig J. Brown
2024 International Joint Conference on Neural Networks (IJCNN), 1–10, 2024
An Empirical Study into Clustering of Unseen Datasets with Self-Supervised Encoders
Scott C. Lowe*, Joakim Bruslund Haurum*, Sageev Oore†, Thomas B. Moeslund†, Graham W. Taylor†
Foundation Models in the Wild Workshop, ICML 2024
A step towards worldwide biodiversity assessment: The BIOSCAN-1M insect dataset
Zahra Gharaee*, ZeMing Gong*, Nicholas Pellegrino*, Iuliia Zarubiieva, Joakim Bruslund Haurum, Scott C. Lowe, Jaclyn T.A. McKeown, Chris C.Y. Ho, Joschka McLeod, Yi-Yun C. Wei, Jireh Agda, Sujeevan Ratnasingham, Dirk Steinke†, Angel X. Chang†, Graham W. Taylor†, Paul Fieguth†
Advances in Neural Information Processing Systems 36 (NeurIPS 2023)
BarcodeBERT: Transformers for Biodiversity Analysis
Pablo Millan Arias*, Niousha Sadjadi*, Monireh Safari*, ZeMing Gong, Austin T. Wang, Joakim Bruslund Haurum, Iuliia Zarubiieva, Dirk Steinke, Lila Kari, Angel X. Chang, Scott C. Lowe†, Graham W. Taylor†
Self-Supervised Learning — Theory and Practice Workshop, NeurIPS 2023
Prevention of obstructive apnea events with machine learning
Hamed Hanafi, Julia Paffile, Meagan Sinclair, Kamal El-Sankary, Scott Lowe, Sageev Oore, Stephen Driscoll, Thomas Penzel, Ingo Fietze, Sanjay Patel, Reena Mehra, Debra Morrison
European Respiratory Journal 62 (suppl 67), 2023
The Beginning of the AI-Enabled Preventative PAP Therapy Era: A First-in-Human Proof of Concept Interventional Study
Meagan Sinclair, Hamed Hanafi Alamdari, Julia Paffile, Kamal El-Sankary, Scott C. Lowe, Stephen Driscoll, Sageev Oore, Heather Tomson, Gregory Begin, Guillermo Aristi, Michael Schmidt, David Roach, Thomas Penzel, Ingo Fietze, Sanjay R. Patel, Reena Mehra, Debra Morrison
IEEE Transactions on Biomedical Engineering 70 (10), 2776–2787, 2023
Logical Activation Functions: Logit-space equivalents of Boolean Operators
Scott C. Lowe, Robert Earle, Jason d'Eon, Thomas Trappenberg, Sageev Oore
Advances in Neural Information Processing Systems 35 (NeurIPS 2022)
Label-free Monitoring of Self-Supervised Learning Progress
Isaac Xu, Scott C. Lowe, Thomas Trappenberg
IEEE Canadian Conference on Electrical and Computer Engineering (CCECE), 2022
Echofilter: A Deep Learning Segmention Model Improves the Automation, Standardization, and Timeliness for Post-Processing Echosounder Data in Tidal Energy Streams
Scott C. Lowe, Louise P. McGarry, Jessica Douglas, Jason Newport, Sageev Oore, Christopher Whidden, Daniel J. Hasselman
Frontiers in Marine Science 9, 867857, 2022
High frequency-low amplitude oscillometry: Continuous unobtrusive monitoring of respiratory function on PAP machines
Hamed Hanafi Alamdari, Luke Hacquebard, Stephen Driscoll, Kamal El-Sankary, David C. Roach, Robin LeBlanc, Scott C. Lowe, Sageev Oore, Thomas Penzel, Ingo Fietze, Michael Schmidt, Debra Morrison
IEEE Transactions on Biomedical Engineering 69 (7), 2202–2211, 2021
LogAvgExp Provides a Principled and Performant Global Pooling Operator
Scott C. Lowe, Thomas Trappenberg, Sageev Oore
arXiv preprint arXiv:2111.01742
Program synthesis performance constrained by non-linear spatial relations in synthetic visual reasoning test
Lu Yihe, Scott C. Lowe, Penelope A. Lewis, Mark C.W. van Rossum
arXiv preprint arXiv:1911.07721
Exploring conditioning for generative music systems with human-interpretable controls
Nicholas Meade*, Nicholas Barreyre*, Scott C. Lowe, Sageev Oore
10th International Conference on Computational Creativity, 2019
FISSA: A neuropil decontamination toolbox for calcium imaging signals
Sander W. Keemink*, Scott C. Lowe*, Janelle M.P. Pakan, Evelyn Dylda, Mark C.W. Van Rossum†, Nathalie L. Rochefort†
Scientific reports 8 (1), 3493, 2018
Dopamine is signaled by mid-frequency oscillations and boosts output layers visual information in visual cortex
Daniel Zaldivar, Jozien Goense, Scott C. Lowe, Nikos K. Logothetis, Stefano Panzeri
Current Biology 28 (2), 224–235. e5, 2018
Decoding information from neural populations in the visual cortex
Scott C. Lowe
The University of Edinburgh, 2017
Behavioral-state modulation of inhibition is context-dependent and cell type specific in mouse visual cortex
Janelle M.P. Pakan, Scott C. Lowe, Evelyn Dylda, Sander W. Keemink, Stephen P. Currie, Christopher A. Coutts, Nathalie L. Rochefort
Elife 5, e14985, 2016
Shifts of gamma phase across primary visual cortical sites reflect dynamic stimulus-modulated information transfer
Michel Besserve, Scott C. Lowe, Nikos K. Logothetis, Bernhard Schölkopf, Stefano Panzeri
PLoS biology 13 (9), e1002257, 2015