arXiv subjects

Fatma Deniz

Publications and source records attributed to Fatma Deniz.

3 recordsLinked to original sources

arXiv2024

Speech language models lack important brain-relevant semantics

Despite known differences between reading and listening in the brain, recent work has shown that text-based language models predict both text-evoked and speech-evoked brain activity to an impressive degree. This poses the question of what types of information language models truly predict in the brain. We investigate this question via a direct approach, in which we systematically remove specific low-level stimulus features (textual, speech, and visual) from language model representations to assess their impact on alignment with fMRI brain recordings during reading and listening. Comparing these findings with speech-based language models reveals starkly different effects of low-level features on brain alignment. While text-based models show reduced alignment in early sensory regions post-removal, they retain significant predictive power in late language regions. In contrast, speech-based models maintain strong alignment in early auditory regions even after feature removal but lose all predictive power in late language regions. These results suggest that speech-based models provide insights into additional information processed by early auditory regions, but caution is needed when using them to model processing in late language regions. We make our code publicly available. [https://github.com/subbareddy248/speech-llm-brain]

cs.CL↗

arXiv2018

The unified maximum a posteriori (MAP) framework for neuronal system identification

The functional relationship between an input and a sensory neuron's response can be described by the neuron's stimulus-response mapping function. A general approach for characterizing the stimulus-response mapping function is called system identification. Many different names have been used for the stimulus-response mapping function: kernel or transfer function, transducer, spatiotemporal receptive field. Many algorithms have been developed to estimate a neuron's mapping function from an ensemble of stimulus-response pairs. These include the spike-triggered average, normalized reverse correlation, linearized reverse correlation, ridge regression, local spectral reverse correlation, spike-triggered covariance, artificial neural networks, maximally informative dimensions, kernel regression, boosting, and models based on leaky integrate-and-fire neurons. Because many of these system identification algorithms were developed in other disciplines, they seem very different superficially and bear little relationship with each other. Each algorithm makes different assumptions about the neuron and how the data is generated. Without a unified framework it is difficult to select the most suitable algorithm for estimating the neuron's mapping function. In this review, we present a unified framework for describing these algorithms called maximum a posteriori estimation (MAP). In the MAP framework, the implicit assumptions built into any system identification algorithm are made explicit in three MAP constituents: model class, noise distributions, and priors. Understanding the interplay between these three MAP constituents will simplify the task of selecting the most appropriate algorithms for a given data set. The MAP framework can also facilitate the development of novel system identification algorithms by incorporating biophysically plausible assumptions and mechanisms into the MAP constituents.

q-bio.NC↗

arXiv2017

Portable learning environments for hands-on computational instruction: Using container- and cloud-based technology to teach data science

There is an increasing interest in learning outside of the traditional classroom setting. This is especially true for topics covering computational tools and data science, as both are challenging to incorporate in the standard curriculum. These atypical learning environments offer new opportunities for teaching, particularly when it comes to combining conceptual knowledge with hands-on experience/expertise with methods and skills. Advances in cloud computing and containerized environments provide an attractive opportunity to improve the efficiency and ease with which students can learn. This manuscript details recent advances towards using commonly-available cloud computing services and advanced cyberinfrastructure support for improving the learning experience in bootcamp-style events. We cover the benefits (and challenges) of using a server hosted remotely instead of relying on student laptops, discuss the technology that was used in order to make this possible, and give suggestions for how others could implement and improve upon this model for pedagogy and reproducibility.

cs.CY↗