Disruption of cell wall fatty acid biosynthesis in Mycobacterium tuberculosis using a graph theoretic approach

Fatty acid biosynthesis of Mycobacterium tuberculosis was analyzed using graph theory and influential (impacting) proteins were identified. The graphs (digraphs) representing this biological network provide information concerning the connectivity of each protein or metabolite in a given pathway, providing an insight into the importance of various components in the pathway, and this can be quantitatively analyzed. Using a graph theoretic algorithm, the most influential set of proteins (sets of {1, 2, 3}, etc.), which when eliminated could cause a significant impact on the biosynthetic pathway, were identified. This set of proteins could serve as drug targets. In the present study, the metabolic network of Mycobacterium tuberculosis was constructed and the fatty acid biosynthesis pathway was analyzed for potential drug targeting. The metabolic network was constructed using the KEGG LIGAND database and subjected to graph theoretical analysis. The nearness index of a protein was used to determine the influence of the said protein on other components in the network, allowing the proteins in a pathway to be ordered according to their nearness indices. A method for identifying the most strategic nodes to target for disrupting the metabolic networks is proposed, aiding the development of new drugs to combat this deadly disease

Probing Semantic Grounding in Language Models of Code with Representational Similarity Analysis

Representational Similarity Analysis is a method from cognitive neuroscience, which helps in comparing representations from two different sources of data. In this paper, we propose using Representational Similarity Analysis to probe the semantic grounding in language models of code. We probe representations from the CodeBERT model for semantic grounding by using the data from the IBM CodeNet dataset. Through our experiments, we show that current pre-training methods do not induce semantic grounding in language models of code, and instead focus on optimizing form-based patterns. We also show that even a little amount of fine-tuning on semantically relevant tasks increases the semantic grounding in CodeBERT significantly. Our ablations with the input modality to the CodeBERT model show that using bimodal inputs (code and natural language) over unimodal inputs (only code) gives better semantic grounding and sample efficiency during semantic fine-tuning. Finally, our experiments with semantic perturbations in code reveal that CodeBERT is able to robustly distinguish between semantically correct and incorrect code.Comment: Under review at ADMA 202

Home Automation Using SSVEP & Eye-Blink Detection Based Brain-Computer Interface

In this paper, we present a novel brain computer interface based home automation system using two responses - Steady State Visually Evoked Potential (SSVEP) and the eye-blink artifact, which is augmented by a Bluetooth based indoor localization system, to greatly increase the number of controllable devices. The hardware implementation of this system to control a table lamp and table fan using brain signals has also been discussed and state-of-the-art results have been achieved.Comment: 2 pages, 1 table, published at IEEE SMC 201

Continuous Time Continuous Space Homeostatic Reinforcement Learning (CTCS-HRRL) : Towards Biological Self-Autonomous Agent

Homeostasis is a biological process by which living beings maintain their internal balance. Previous research suggests that homeostasis is a learned behaviour. Recently introduced Homeostatic Regulated Reinforcement Learning (HRRL) framework attempts to explain this learned homeostatic behavior by linking Drive Reduction Theory and Reinforcement Learning. This linkage has been proven in the discrete time-space, but not in the continuous time-space. In this work, we advance the HRRL framework to a continuous time-space environment and validate the CTCS-HRRL (Continuous Time Continuous Space HRRL) framework. We achieve this by designing a model that mimics the homeostatic mechanisms in a real-world biological agent. This model uses the Hamilton-Jacobian Bellman Equation, and function approximation based on neural networks and Reinforcement Learning. Through a simulation-based experiment we demonstrate the efficacy of this model and uncover the evidence linked to the agent's ability to dynamically choose policies that favor homeostasis in a continuously changing internal-state milieu. Results of our experiments demonstrate that agent learns homeostatic behaviour in a CTCS environment, making CTCS-HRRL a promising framework for modellng animal dynamics and decision-making.Comment: This work is a result of the ongoing collaboration between Cognitive Neuroscience Lab, BITS Pilani K K Birla Goa Campus and Ecole Normale Superieure, Paris France. This work is jointly supervised by Prof. Boris Gutkin and Prof. Veeky Baths. arXiv admin note: substantial text overlap with arXiv:2109.0658

Long-Term Memorability On Advertisements

Marketers spend billions of dollars on advertisements but to what end? At the purchase time, if customers cannot recognize a brand for which they saw an ad, the money spent on the ad is essentially wasted. Despite its importance in marketing, until now, there has been no study on the memorability of ads in the ML literature. Most studies have been conducted on short-term recall (<5 mins) on specific content types like object and action videos. On the other hand, the advertising industry only cares about long-term memorability (a few hours or longer), and advertisements are almost always highly multimodal, depicting a story through its different modalities (text, images, and videos). With this motivation, we conduct the first large scale memorability study consisting of 1203 participants and 2205 ads covering 276 brands. Running statistical tests over different participant subpopulations and ad-types, we find many interesting insights into what makes an ad memorable - both content and human factors. For example, we find that brands which use commercials with fast moving scenes are more memorable than those with slower scenes (p=8e-10) and that people who use ad-blockers remember lower number of ads than those who don't (p=5e-3). Further, with the motivation of simulating the memorability of marketing materials for a particular audience, ultimately helping create one, we present a novel model, Sharingan, trained to leverage real-world knowledge of LLMs and visual knowledge of visual encoders to predict the memorability of a content. We test our model on all the prominent memorability datasets in literature (both images and videos) and achieve state of the art across all of them. We conduct extensive ablation studies across memory types, modality, brand, and architectural choices to find insights into what drives memory

Mental health assessment in undergraduate students using DASS21 and Visual Working Memory Task

Substantial adolescence is spent in an academic environment where the student can experience varying intensities of depression, stress, and anxiety, which can be fatal. To address this concern, we utilized the Depression Anxiety and Stress Survey (DASS) 21 and Modified Sternberg working memory, thereby assessing the emotional states and assessing the impact on the cognitive ability of students (n=37, F=7) in terms of working memory. An intervention was provided (Art of Living YES+ program) for ten days. The assessment is carried out in the time window of two months before and after the intervention. F-test and T-test(p≤0.05) on the scores and reaction time are performed for hypothesis testing. This statistical analysis reveals that both the depression category and stress category reject the null hypothesis. Among the thirty-seven, only five students took part in the post-intervention assessment, the scores in 28% of the questions had lower scores, and 19 % did not have any change; however, there was an increase in the scores in 42% of the questions. No significant changes are observed in the working memory ability of the students. Based on reaction time analysis: 11.62%, 16.27%, and 25.58% are outliers for each type of question, respectively. Two participants showed significantly lower reaction times, indicating a faster reading ability than the rest. This study shows that the intervention can positively impact emotional states-depression, stress, and affect working memory abilities