Michael P Brenner
Michael is an applied mathematician, interested in the interface between machine learning and science.
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Alignment of brain embeddings and artificial contextual embeddings in natural language points to common geometric patterns
Ariel Goldstein
Avigail Grinstein-Dabush
Haocheng Wang
Zhuoqiao Hong
Bobbi Aubrey
Samuel A. Nastase
Zaid Zada
Eric Ham
Harshvardhan Gazula
Eliav Buchnik
Werner Doyle
Sasha Devore
Patricia Dugan
Roi Reichart
Daniel Friedman
Orrin Devinsky
Adeen Flinker
Uri Hasson
Nature Communications (2024)
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Contextual embeddings, derived from deep language models (DLMs), provide
a continuous vectorial representation of language. This embedding space
differs fundamentally from the symbolic representations posited by traditional
psycholinguistics. We hypothesize that language areas in the human brain,
similar to DLMs, rely on a continuous embedding space to represent language.
To test this hypothesis, we densely record the neural activity patterns in the
inferior frontal gyrus (IFG) of three participants using dense intracranial arrays
while they listened to a 30-minute podcast. From these fine-grained spatiotemporal neural recordings, we derive a continuous vectorial representation
for each word (i.e., a brain embedding) in each patient. We demonstrate that
brain embeddings in the IFG and the DLM contextual embedding space have
common geometric patterns using stringent zero-shot mapping. The common
geometric patterns allow us to predict the brain embedding of a given left-out
word in IFG based solely on its geometrical relationship to other nonoverlapping words in the podcast. Furthermore, we show that contextual
embeddings better capture the geometry of IFG embeddings than static word
embeddings. The continuous brain embedding space exposes a vector-based
neural code for natural language processing in the human brain.
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Using large language models to accelerate communication for eye gaze typing users with ALS
Subhashini Venugopalan
Katie Seaver
Xiang Xiao
Katrin Tomanek
Sri Jalasutram
Ajit Narayanan
Bob MacDonald
Emily Kornman
Daniel Vance
Blair Casey
Steve Gleason
(2024)
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Accelerating text input in augmentative and alternative communication (AAC) is a long-standing area of research with bearings on the quality of life in individuals with profound motor impairments. Recent advances in large language models (LLMs) pose opportunities for re-thinking strategies for enhanced text entry in AAC. In this paper, we present SpeakFaster, consisting of an LLM-powered user interface for text entry in a highly-abbreviated form, saving 57% more motor actions than traditional predictive keyboards in offline simulation. A pilot study on a mobile device with 19 non-AAC participants demonstrated motor savings in line with simulation and relatively small changes in typing speed. Lab and field testing on two eye-gaze AAC users with amyotrophic lateral sclerosis demonstrated text-entry rates 29–60% above baselines, due to significant saving of expensive keystrokes based on LLM predictions. These findings form a foundation for further exploration of LLM-assisted text entry in AAC and other user interfaces.
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Neural general circulation models for weather and climate
Dmitrii Kochkov
Janni Yuval
Ian Langmore
Jamie Smith
Griffin Mooers
Milan Kloewer
James Lottes
Peter Dueben
Samuel Hatfield
Peter Battaglia
Alvaro Sanchez
Matthew Willson
Nature, 632 (2024), pp. 1060-1066
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General circulation models (GCMs) are the foundation of weather and climate prediction. GCMs are physics-based simulators that combine a numerical solver for large-scale dynamics with tuned representations for small-scale processes such as cloud formation. Recently, machine-learning models trained on reanalysis data have achieved comparable or better skill than GCMs for deterministic weather forecasting. However, these models have not demonstrated improved ensemble forecasts, or shown sufficient stability for long-term weather and climate simulations. Here we present a GCM that combines a differentiable solver for atmospheric dynamics with machine-learning components and show that it can generate forecasts of deterministic weather, ensemble weather and climate on par with the best machine-learning and physics-based methods. NeuralGCM is competitive with machine-learning models for one- to ten-day forecasts, and with the European Centre for Medium-Range Weather Forecasts ensemble prediction for one- to fifteen-day forecasts. With prescribed sea surface temperature, NeuralGCM can accurately track climate metrics for multiple decades, and climate forecasts with 140-kilometre resolution show emergent phenomena such as realistic frequency and trajectories of tropical cyclones. For both weather and climate, our approach offers orders of magnitude computational savings over conventional GCMs, although our model does not extrapolate to substantially different future climates. Our results show that end-to-end deep learning is compatible with tasks performed by conventional GCMs and can enhance the large-scale physical simulations that are essential for understanding and predicting the Earth system.
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Speech Intelligibility Classifiers from 550k Disordered Speech Samples
Katie Seaver
Richard Cave
Neil Zeghidour
Rus Heywood
Jordan Green
ICASSP, Icassp submission. 2022 (2023)
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We developed dysarthric speech intelligibility classifiers on 551,176 disordered speech samples contributed by a diverse set of 468 speakers, with a range of self-reported speaking disorders and rated for their overall intelligibility on a fivepoint scale. We trained three models following different deep learning approaches and evaluated them on ∼94K utterances from 100 speakers. We further found the models to generalize well (without further training) on the TORGO database (100% accuracy), UASpeech (0.93 correlation), ALS-TDI PMP (0.81 AUC) datasets as well as on a dataset of realistic unprompted speech we gathered (106 dysarthric and 76 control speakers, ∼2300 samples).
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Shared computational principles for language processing in humans and deep language models
Ariel Goldstein
Zaid Zada
Eliav Buchnik
Amy Price
Bobbi Aubrey
Samuel A. Nastase
Harshvardhan Gazula
Gina Choe
Aditi Rao
Catherine Kim
Colton Casto
Lora Fanda
Werner Doyle
Daniel Friedman
Patricia Dugan
Lucia Melloni
Roi Reichart
Sasha Devore
Adeen Flinker
Liat Hasenfratz
Omer Levy,
Kenneth A. Norman
Orrin Devinsky
Uri Hasson
Nature Neuroscience (2022)
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Departing from traditional linguistic models, advances in deep learning have resulted in a new type of predictive (autoregressive) deep language models (DLMs). Using a self-supervised next-word prediction task, these models generate appropriate linguistic responses in a given context. In the current study, nine participants listened to a 30-min podcast while their brain responses were recorded using electrocorticography (ECoG). We provide empirical evidence that the human brain and autoregressive DLMs share three fundamental computational principles as they process the same natural narrative: (1) both are engaged in continuous next-word prediction before word onset; (2) both match their pre-onset predictions to the incoming word to calculate post-onset surprise; (3) both rely on contextual embeddings to represent words in natural contexts. Together, our findings suggest that autoregressive DLMs provide a new and biologically feasible computational framework for studying the neural basis of language.
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A Machine-Learning Based Objective Measure for ALS disease progression
Fernando Viera
Alan S Premasiri
Maeve McNally
Steven Perrin
npj Digital Medicine (2022)
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Amyotrophic Lateral Sclerosis (ALS) disease progression is usually measured using the subjective, questionnaire-based revised ALS Functional Rating Scale (ALSFRS-R). A purely objective measure for tracking disease progression would be a powerful tool for evaluating real-world drug effectiveness, efficacy in clinical trials, as well as identifying participants for cohort studies. Here we develop a machine learning based objective measure for ALS disease progression, based on voice samples and accelerometer measurements. The ALS Therapy Development Institute (ALS-TDI) collected a unique dataset of voice and accelerometer samples from consented individuals - 584 people living with ALS over four years. Participants carried out prescribed speaking and limb-based tasks. 542 participants contributed 5814 voice recordings, and 350 contributed 13009 accelerometer samples, while simultaneously measuring ALSFRS-R. Using the data from 475 participants, we trained machine learning (ML) models, correlating voice with bulbar-related FRS scores and accelerometer with limb related scores. On the test set (n=109 participants) the voice models achieved an AUC of 0.86 (95% CI, 0.847-0.884) , whereas the accelerometer models achieved a median AUC of 0.73 . We used the models and self-reported ALSFRS-R scores to evaluate the real-world effects of edaravone, a drug recently approved for use in ALS, on 54 test participants. In the test cohort, the digital data input into the ML models produced objective measures of progression rates over the duration of the study that were consistent with self-reported scores. This demonstrates the value of these tools for assessing both disease progression and potentially drug effects. In this instance, outcomes from edaravone treatment, both self-reported and digital-ML, resulted in highly variable outcomes from person to person.
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Context-Aware Abbreviation Expansion Using Large Language Models
Katrin Tomanek
Ajit Narayanan
Annual Conference of the North American Chapter of the Association for Computational Linguistics, 2022 (2022) (to appear)
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Motivated by the need for accelerating text entry in augmentative and alternative communication (AAC) for people with severe motor impairments, we propose a paradigm in which phrases are abbreviated aggressively as primarily word-initial letters. Our approach is to expand the abbreviations into full-phrase options by leveraging conversation context with the power of pretrained large language models (LLMs). Through zero-shot, few-shot, and fine-tuning experiments on four public conversation datasets, we show that for replies to the initial turn of a dialog, an LLM with 64B parameters is able to exactly expand over 70% of phrases with abbreviation length up to 10, leading to an effective keystroke saving rate of up to about 77% on these exact expansions. Including a small amount of context in the form of a single conversation turn more than doubles abbreviation expansion accuracies compared to having no context, an effect that is more pronounced for longer phrases. Additionally, the robustness of models against typo noise can be enhanced through fine-tuning on noisy data.
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COVID-19 Open-Data: a global-scale spatially granular meta-dataset for coronavirus disease
Oscar Wahltinez
Aurora Cheung
Ruth Alcantara
Donny Cheung
Mayank Daswani
Anthony Erlinger
Matt Lee
Pranali Yawalkar
Paula Lê
Ofir Picazo Navarro
Scientific Data (2022)
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This paper introduces the COVID-19 Open Dataset (COD), available at goo.gle/covid-19-open-data. A static copy is of the dataset is also available at https://doi.org/10.6084/m9.figshare.c.5399355. This is a very large “meta-dataset” of COVID-related data, containing epidemiological information, from 22,579 unique locations within 232 different countries and independent territories. For 62 of these countries we have state-level data, and for 23 of these countries we have county-level data. For 15 countries, COD includes cases and deaths stratified by age or sex. COD also contains information on hospitalizations, vaccinations, and other relevant factors such as mobility, non-pharmaceutical interventions and static demographic attributes. Each location is tagged with a unique identifier so that these different types of information can be easily combined. The data is automatically extracted from 121 different authoritative sources, using scalable open source software. This paper describes the format and construction of the dataset, and includes a preliminary statistical analysis of its content, revealing some interesting patterns.
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Comparing Supervised Models And Learned Speech Representations For Classifying Intelligibility Of Disordered Speech On Selected Phrases
Joel Shor
Katrin Tomanek
Jordan R. Green
Interspeech, Interspeech 2021 (2021) (to appear)
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Automatic classification of disordered speech can provide an objective tool for identifying the presence and severity of a speech impairment. Classification approaches can also help identify hard-to-recognize speech samples to teach ASR systems about the variable manifestations of impaired speech. Here, we develop and compare different deep learning techniques to classify the intelligibility of disordered speech on selected phrases. We collected samples from a diverse set of 661 speakers with a variety of self-reported disorders speaking 29 words or phrases, which were rated by speech-language pathologists for their overall intelligibility using a five-point Likert scale. We then evaluated classifiers developed using 3 approaches: (1) a convolutional neural network (CNN) trained for the task, (2) classifiers trained on non-semantic speech representations from CNNs that used an unsupervised objective [1], and (3) classifiers trained on the acoustic (encoder) embeddings from an ASR system trained on typical speech [2]. We find that the ASR encoder’s embeddings considerably outperform the other two on detecting and classifying disordered speech. Further analysis shows that the ASR embeddings cluster speech by the spoken phrase, while the non-semantic embeddings cluster speech by speaker. Also, longer phrases are more indicative of intelligibility deficits than single words.
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Disordered Speech Data Collection: Lessons Learned at 1 Million Utterances from Project Euphonia
Bob MacDonald
Rus Heywood
Richard Cave
Katie Seaver
Marilyn Ladewig
Jordan R. Green
Katrin Tomanek
Interspeech (2021) (to appear)
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Speech samples from over 1000 individuals with impaired speech have been submitted for Project Euphonia, aimed at improving automated speech recognition for atypical speech. We provide an update on the contents of the corpus, which recently passed 1 million utterances, and review key lessons learned from this project.
The reasoning behind decisions such as phrase set composition, prompted vs extemporaneous speech, metadata and data quality efforts are explained based on findings from both technical and user-facing research.
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