Active Prompt Tuning Enables Gpt-40 To Do Efficient Classification Of Microscopy Images

Traditional deep learning-based methods for classifying cellular features in microscopy images require time- and labor-intensive processes for training models. Among the current limitations are major time commitments from domain experts for accurate ground truth preparation; and the need for a large amount of input image data. We previously proposed a solution that overcomes these challenges using OpenAI's GPT-4(V) model on a pilot dataset (Iba-1 immuno-stained tissue sections from 11 mouse brains). Results on the pilot dataset were equivalent in accuracy and with a substantial improvement in throughput efficiency compared to the baseline using a traditional Convolutional Neural Net (CNN)-based approach. The present study builds upon this framework using a second unique and substantially larger dataset of microscopy images. Our current approach uses a newer and faster model, GPT-4o, along with improved prompts. It was evaluated on a microscopy image dataset captured at low (10x) magnification from cresyl-violet-stained sections through the cerebellum of a total of 18 mouse brains (9 Lurcher mice, 9 wild-type controls). We used our approach to classify these images either as a control group or Lurcher mutant. Using 6 mice in the prompt set the results were correct classification for 11 out of the 12 mice (92%) with 96% higher efficiency, reduced image requirements, and lower demands on time and effort of domain experts compared to the baseline method (snapshot ensemble of CNN models). These results confirm that our approach is effective across multiple datasets from different brain regions and magnifications, with minimal overhead.

A Preliminary Study on Using Large Language Models in Software Pentesting

Large language models (LLM) are perceived to offer promising potentials for automating security tasks, such as those found in security operation centers (SOCs). As a first step towards evaluating this perceived potential, we investigate the use of LLMs in software pentesting, where the main task is to automatically identify software security vulnerabilities in source code. We hypothesize that an LLM-based AI agent can be improved over time for a specific security task as human operators interact with it. Such improvement can be made, as a first step, by engineering prompts fed to the LLM based on the responses produced, to include relevant contexts and structures so that the model provides more accurate results. Such engineering efforts become sustainable if the prompts that are engineered to produce better results on current tasks, also produce better results on future unknown tasks. To examine this hypothesis, we utilize the OWASP Benchmark Project 1.2 which contains 2,740 hand-crafted source code test cases containing various types of vulnerabilities. We divide the test cases into training and testing data, where we engineer the prompts based on the training data (only), and evaluate the final system on the testing data. We compare the AI agent's performance on the testing data against the performance of the agent without the prompt engineering. We also compare the AI agent's results against those from SonarQube, a widely used static code analyzer for security testing. We built and tested multiple versions of the AI agent using different off-the-shelf LLMs -- Google's Gemini-pro, as well as OpenAI's GPT-3.5-Turbo and GPT-4-Turbo (with both chat completion and assistant APIs). The results show that using LLMs is a viable approach to build an AI agent for software pentesting that can improve through repeated use and prompt engineering.

Robust Neonatal Face Detection in Real-world Clinical Settings

Current face detection algorithms are extremely generalized and can obtain decent accuracy when detecting the adult faces. These approaches are insufficient when handling outlier cases, for example when trying to detect the face of a neonate infant whose face composition and expressions are relatively different than that of the adult. It is furthermore difficult when applied to detect faces in a complicated setting such as the Neonate Intensive Care Unit. By training a state-of-the-art face detection model, You-Only-Look-Once, on a proprietary dataset containing labelled neonate faces in a clinical setting, this work achieves near real time neonate face detection. Our preliminary findings show an accuracy of 68.7%, compared to the off the shelf solution which detected neonate faces with an accuracy of 7.37%. Although further experiments are needed to validate our model, our results are promising and prove the feasibility of detecting neonatal faces in challenging real-world settings. The robust and real-time detection of neonatal faces would benefit wide range of automated systems (e.g., pain recognition and surveillance) who currently suffer from the time and effort due to the necessity of manual annotations. To benefit the research community, we make our trained weights publicly available at github(https://github.com/ja05haus/trained_neonate_face).

Pattern Recognition in Vital Signs Using Spectrograms

Spectrograms visualize the frequency components of a given signal which may be an audio signal or even a time-series signal. Audio signals have higher sampling rate and high variability of frequency with time. Spectrograms can capture such variations well. But, vital signs which are time-series signals have less sampling frequency and low-frequency variability due to which, spectrograms fail to express variations and patterns. In this paper, we propose a novel solution to introduce frequency variability using frequency modulation on vital signs. Then we apply spectrograms on frequency modulated signals to capture the patterns. The proposed approach has been evaluated on 4 different medical datasets across both prediction and classification tasks. Significant results are found showing the efficacy of the approach for vital sign signals. The results from the proposed approach are promising with an accuracy of 91.55% and 91.67% in prediction and classification tasks respectively.

Multimodal Spatio-Temporal Deep Learning Approach for Neonatal Postoperative Pain Assessment

The current practice for assessing neonatal postoperative pain relies on bedside caregivers. This practice is subjective, inconsistent, slow, and discontinuous. To develop a reliable medical interpretation, several automated approaches have been proposed to enhance the current practice. These approaches are unimodal and focus mainly on assessing neonatal procedural (acute) pain. As pain is a multimodal emotion that is often expressed through multiple modalities, the multimodal assessment of pain is necessary especially in case of postoperative (acute prolonged) pain. Additionally, spatio-temporal analysis is more stable over time and has been proven to be highly effective at minimizing misclassification errors. In this paper, we present a novel multimodal spatio-temporal approach that integrates visual and vocal signals and uses them for assessing neonatal postoperative pain. We conduct comprehensive experiments to investigate the effectiveness of the proposed approach. We compare the performance of the multimodal and unimodal postoperative pain assessment, and measure the impact of temporal information integration. The experimental results, on a real-world dataset, show that the proposed multimodal spatio-temporal approach achieves the highest AUC (0.87) and accuracy (79%), which are on average 6.67% and 6.33% higher than unimodal approaches. The results also show that the integration of temporal information markedly improves the performance as compared to the non-temporal approach as it captures changes in the pain dynamic. These results demonstrate that the proposed approach can be used as a viable alternative to manual assessment, which would tread a path toward fully automated pain monitoring in clinical settings, point-of-care testing, and homes.

First Investigation Into the Use of Deep Learning for Continuous Assessment of Neonatal Postoperative Pain

This paper presents the first investigation into the use of fully automated deep learning framework for assessing neonatal postoperative pain. It specifically investigates the use of Bilinear Convolutional Neural Network (B-CNN) to extract facial features during different levels of postoperative pain followed by modeling the temporal pattern using Recurrent Neural Network (RNN). Although acute and postoperative pain have some common characteristics (e.g., visual action units), postoperative pain has a different dynamic, and it evolves in a unique pattern over time. Our experimental results indicate a clear difference between the pattern of acute and postoperative pain. They also suggest the efficiency of using a combination of bilinear CNN with RNN model for the continuous assessment of postoperative pain intensity.

Harnessing the Power of Deep Learning Methods in Healthcare: Neonatal Pain Assessment from Crying Sound

Neonatal pain assessment in clinical environments is challenging as it is discontinuous and biased. Facial/body occlusion can occur in such settings due to clinical condition, developmental delays, prone position, or other external factors. In such cases, crying sound can be used to effectively assess neonatal pain. In this paper, we investigate the use of a novel CNN architecture (N-CNN) along with other CNN architectures (VGG16 and ResNet50) for assessing pain from crying sounds of neonates. The experimental results demonstrate that using our novel N-CNN for assessing pain from the sounds of neonates has a strong clinical potential and provides a viable alternative to the current assessment practice.

Multi-Channel Neural Network for Assessing Neonatal Pain from Videos

Neonates do not have the ability to either articulate pain or communicate it non-verbally by pointing. The current clinical standard for assessing neonatal pain is intermittent and highly subjective. This discontinuity and subjectivity can lead to inconsistent assessment, and therefore, inadequate treatment. In this paper, we propose a multi-channel deep learning framework for assessing neonatal pain from videos. The proposed framework integrates information from two pain indicators or channels, namely facial expression and body movement, using convolutional neural network (CNN). It also integrates temporal information using a recurrent neural network (LSTM). The experimental results prove the efficiency and superiority of the proposed temporal and multi-channel framework as compared to existing similar methods.

Iterative Deep Learning Based Unbiased Stereology With Human-in-the-Loop

Lack of enough labeled data is a major problem in building machine learning based models when the manual annotation (labeling) is error-prone, expensive, tedious, and time-consuming. In this paper, we introduce an iterative deep learning based method to improve segmentation and counting of cells based on unbiased stereology applied to regions of interest of extended depth of field (EDF) images. This method uses an existing machine learning algorithm called the adaptive segmentation algorithm (ASA) to generate masks (verified by a user) for EDF images to train deep learning models. Then an iterative deep learning approach is used to feed newly predicted and accepted deep learning masks/images (verified by a user) to the training set of the deep learning model. The error rate in unbiased stereology count of cells on an unseen test set reduced from about 3 % to less than 1 % after 5 iterations of the iterative deep learning based unbiased stereology process.

Neonatal Pain Expression Recognition Using Transfer Learning

Transfer learning using pre-trained Convolutional Neural Networks (CNNs) has been successfully applied to images for different classification tasks. In this paper, we propose a new pipeline for pain expression recognition in neonates using transfer learning. Specifically, we propose to exploit a pre-trained CNN that was originally trained on a relatively similar dataset for face recognition (VGG Face) as well as CNNs that were pre-trained on a relatively different dataset for image classification (iVGG F,M, and S) to extract deep features from neonates' faces. In the final stage, several supervised machine learning classifiers are trained to classify neonates' facial expression into pain or no pain expression. The proposed pipeline achieved, on a testing dataset, 0.841 AUC and 90.34 accuracy, which is approx. 7 higher than the accuracy of handcrafted traditional features. We also propose to combine deep features with traditional features and hypothesize that the mixed features would improve pain classification performance. Combining deep features with traditional features achieved 92.71 accuracy and 0.948 AUC. These results show that transfer learning, which is a faster and more practical option than training CNN from the scratch, can be used to extract useful features for pain expression recognition in neonates. It also shows that combining deep features with traditional handcrafted features is a good practice to improve the performance of pain expression recognition and possibly the performance of similar applications.