We introduce SparseVM, a method that registers clinical-quality 3D MR scans both faster and more accurately than previously possible. Deformable alignment, or registration, of clinical scans is a fundamental task for many clinical neuroscience studies. However, most registration algorithms are designed for high-resolut…
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48 results for “clinical research”
The paper predicts diseases using both clinical and genomics data.
problem Clinical predictions using genomics data are not common.
method Integrated clinical and genomics datasets, machine learning, Principal Component Analysis for feature selection.
result 73% accuracy in predicting 75 disease classes.
With the maturation of metabolomics science and proliferation of biobanks, clinical metabolic profiling is an increasingly opportunistic frontier for advancing translational clinical research. Automated Machine Learning (AutoML) approaches provide exciting opportunity to guide feature selection in agnostic metabolic pr…
This paper reports on Qwant Research contribution to tasks 2 and 3 of the DEFT 2019's challenge, focusing on French clinical cases analysis. Task 2 is a task on semantic similarity between clinical cases and discussions. For this task, we propose an approach based on language models and evaluate the impact on the resul…
Compressed sensing in MRI enables high subsampling factors while maintaining diagnostic image quality. This technique enables shortened scan durations and/or improved image resolution. Further, compressed sensing can increase the diagnostic information and value from each scan performed. Overall, compressed sensing has…
Teaching reproducible research for medical students and postgraduate pharmaceutical scientistsstat.ML
Teaches reproducible research to medical students and postgrads.
problem Lack of reproducibility in medical research practices.
method Designed and delivered a lecture series on reproducible research.
result Encountered practical obstacles in reproducing a published analysis.
The past decade has seen an explosion in the amount of digital information stored in electronic health records (EHR). While primarily designed for archiving patient clinical information and administrative healthcare tasks, many researchers have found secondary use of these records for various clinical informatics tasks…
Study re-evaluates MIMIC-III codes, finding many are under-coded.
problem Validity of MIMIC-III clinical codes is questionable.
method Open-source, reproducible methodology for assessing codes.
result Most frequently assigned codes are under-coded up to 35%
Study develops a new algorithm for assessing clinical trial abstracts.
problem Limited tools for assessing qualitative statements in clinical research.
method Developed a three-class sentiment classification algorithm using BERT model.
result Algorithm achieved 91.3% classification accuracy and 0.92 macro F1-Score.
Aiming for Relevancecs.LG
Novel metrics improve machine learning models for ICU patient care.
problem Predicting vital sign trajectories for early detection of adverse events.
method Developed novel performance metrics aligned with clinical contexts, validated on simulated and real datasets, and optimized neural networks using these metrics.
result Neural networks trained with these metrics excel in predicting clinically significant events.
Objectives: Electronic health records (EHRs) are only a first step in capturing and utilizing health-related data - the challenge is turning that data into useful information. Furthermore, EHRs are increasingly likely to include data relating to patient outcomes, functionality such as clinical decision support, and gen…
Develops ML-DQA for healthcare data quality assurance.
problem Inconsistent use of real-world data in machine learning projects.
method Develops ML-DQA framework based on RWD best practices.
result Five generalizable practices emerge from ML-DQA implementation.
The reliability of a deep learning model in clinical out-of-distribution MRI data: a multicohort studyphysics.med-ph
Deep learning (DL) methods have in recent years yielded impressive results in medical imaging, with the potential to function as clinical aid to radiologists. However, DL models in medical imaging are often trained on public research cohorts with images acquired with a single scanner or with strict protocol harmonizati…
Machine Learning and Visualization in Clinical Decision Support: Current State and Future Directionscs.LG
Deep learning, an area of machine learning, is set to revolutionize patient care. But it is not yet part of standard of care, especially when it comes to individual patient care. In fact, it is unclear to what extent data-driven techniques are being used to support clinical decision making (CDS). Heretofore, there has …
Enhances clinical trial predictions by quantifying uncertainty.
problem Uncertainty in medical diagnosis and drug discovery predictions.
method Selective classification integrated with Hierarchical Interaction Network (HINT).
result Significant improvement in PR-AUC, F1, ROC-AUC, and overall accuracy.
Classification of seizure type is a key step in the clinical process for evaluating an individual who presents with seizures. It determines the course of clinical diagnosis and treatment, and its impact stretches beyond the clinical domain to epilepsy research and the development of novel therapies. Automated identific…
Evaluating the clinical similarities between pairwise patients is a fundamental problem in healthcare informatics. A proper patient similarity measure enables various downstream applications, such as cohort study and treatment comparative effectiveness research. One major carrier for conducting patient similarity resea…
The study compares machine learning models for depression detection and highlights the importance of feature selection.
problem The choice of features in machine learning models for depression detection is crucial.
method Comparison of seven machine learning models on depression detection tasks.
result Optimal feature selection is essential for accurate and clinically acceptable classification solutions.
Automated extraction of concepts from patient clinical records is an essential facilitator of clinical research. For this reason, the 2010 i2b2/VA Natural Language Processing Challenges for Clinical Records introduced a concept extraction task aimed at identifying and classifying concepts into predefined categories (i.…
Health care is one of the most exciting frontiers in data mining and machine learning. Successful adoption of electronic health records (EHRs) created an explosion in digital clinical data available for analysis, but progress in machine learning for healthcare research has been difficult to measure because of the absen…
Treatment recommendations within Clinical Practice Guidelines (CPGs) are largely based on findings from clinical trials and case studies, referred to here as research studies, that are often based on highly selective clinical populations, referred to here as study cohorts. When medical practitioners apply CPG recommend…
KM-GPT: An Automated Pipeline for Reconstructing Individual Patient Data from Kaplan-Meier Plotscs.LG
KM-GPT automates IPD reconstruction from KM plots with high accuracy and scalability.
problem Manual digitization of IPD from KM plots is error-prone and lacks scalability.
method KM-GPT integrates advanced image preprocessing, multi-modal reasoning, and iterative reconstruction algorithms.
result KM-GPT generates high-quality IPD without manual input or intervention, achieving superior accuracy.
Systematic review of multimodal data challenges and solutions.
problem Challenges in integrating diverse data types for improved diagnostics and personalized care.
method Synthesizing findings from 69 studies on technical obstacles and recent methodological advances.
result Promising solutions like transfer learning, generative models, attention mechanisms, and neural architecture search.
PKB framework boosts genomic data analysis by integrating pathway knowledge.
problem Boosting discovery power and connecting new findings with biological mechanisms in genomic data.
method Pathway-based Kernel Boosting (PKB) framework integrating clinical and pathway information for prediction of various outcomes.
result PKB substantially outperforms other methods in predicting drug response and cancer survival.
ROOFS helps researchers select robust biomarker features from complex data.
problem Challenges in feature selection for biomarker discovery and clinical models.
method ROOFS is a Python package that benchmarks multiple feature selection methods on user data.
result ROOFS identifies a filter method as optimal for identifying predictors of lung cancer resistance.
Communication-Efficient Federated Risk Difference Estimation for Time-to-Event Clinical Outcomesstat.ML
FedRD improves risk difference estimation in federated learning for clinical outcomes.
problem Privacy-preserving model co-training in medical research is hindered by server-dependent architectures and focus on relative effect measures.
method FedRD is a server-independent, communication-efficient framework for federated risk difference estimation in distributed survival data.
result FedRD provides valid confidence intervals and hypothesis testing, and is asymptotically equivalent to pooled individual-level analysis.
The recent adoption of Electronic Health Records (EHRs) by health care providers has introduced an important source of data that provides detailed and highly specific insights into patient phenotypes over large cohorts. These datasets, in combination with machine learning and statistical approaches, generate new opport…
Machine learning is bringing a paradigm shift to healthcare by changing the process of disease diagnosis and prognosis in clinics and hospitals. This development equips doctors and medical staff with tools to evaluate their hypotheses and hence make more precise decisions. Although most current research in the literatu…
Visual system compares and evaluates machine learning models for clinical data predictions.
problem Challenges in comparing and evaluating different machine learning models for medical predictions.
method Developed a visual analytics system to compare and evaluate multiple models' prediction criteria and consistency.
result Demonstrated the effectiveness of the visual analytics system in assisting clinicians and researchers.
The medical research facilitates to acquire a diverse type of data from the same individual for particular cancer. Recent studies show that utilizing such diverse data results in more accurate predictions. The major challenge faced is how to utilize such diverse data sets in an effective way. In this paper, we introduc…
Translating machine learning (ML) models effectively to clinical practice requires establishing clinicians' trust. Explainability, or the ability of an ML model to justify its outcomes and assist clinicians in rationalizing the model prediction, has been generally understood to be critical to establishing trust. Howeve…
Obtaining magnetic resonance images (MRI) with high resolution and generating quantitative image-based biomarkers for assessing tissue biochemistry is crucial in clinical and research applications. How- ever, acquiring quantitative biomarkers requires high signal-to-noise ratio (SNR), which is at odds with high-resolut…
Paper tackles robust batched bandits for heavy-tailed rewards.
problem Clinical trials and other applications with heavy-tailed rewards.
method Proposes robust batched bandit algorithms for heavy-tailed rewards in finite-arm and Lipschitz-continuous settings.
result Heavier-tailed rewards require fewer batches for near-optimal regret in the instance-independent regime and Lipschitz setting.
Study predicts antimicrobial resistance in ICU patients quickly.
problem Delayed AMR testing in ICU leads to suboptimal treatment.
method Developed predictive models using clinical and microbiological data.
result Machine learning models predict AMR with higher accuracy than naive model.
Learning to Exploit Invariances in Clinical Time-Series Data using Sequence Transformer Networkscs.LG
Recently, researchers have started applying convolutional neural networks (CNNs) with one-dimensional convolutions to clinical tasks involving time-series data. This is due, in part, to their computational efficiency, relative to recurrent neural networks and their ability to efficiently exploit certain temporal invari…
Heart failure hospitalization is a severe burden on healthcare. How to predict and therefore prevent readmission has been a significant challenge in outcomes research. To address this, we propose a deep learning approach to predict readmission from clinical notes. Unlike conventional methods that use structured data fo…
Deep learning-based health status representation learning and clinical prediction have raised much research interest in recent years. Existing models have shown superior performance, but there are still several major issues that have not been fully taken into consideration. First, the historical variation pattern of th…
Over half a million individuals are diagnosed with head and neck cancer each year worldwide. Radiotherapy is an important curative treatment for this disease, but it requires manual time consuming delineation of radio-sensitive organs at risk (OARs). This planning process can delay treatment, while also introducing int…
Mapping and translating professional but arcane clinical jargons to consumer language is essential to improve the patient-clinician communication. Researchers have used the existing biomedical ontologies and consumer health vocabulary dictionary to translate between the languages. However, such approaches are limited b…
Predicting the patient's clinical outcome from the historical electronic medical records (EMR) is a fundamental research problem in medical informatics. Most deep learning-based solutions for EMR analysis concentrate on learning the clinical visit embedding and exploring the relations between visits. Although those wor…
Image post-processing is used in clinical-grade ultrasound scanners to improve image quality (e.g., reduce speckle noise and enhance contrast). These post-processing techniques vary across manufacturers and are generally kept proprietary, which presents a challenge for researchers looking to match current clinical-grad…
Study examines impact of fairness penalties on clinical risk prediction models.
problem Widespread health disparities in machine learning-guided clinical decision-making.
method Empirical study across multiple databases, outcomes, and sensitive attributes.
result Penalizing fairness violations nearly universally degrades model performance and fairness metrics.
Rare diseases affect a relatively small number of people, which limits investment in research for treatments and cures. Developing an efficient method for rare disease detection is a crucial first step towards subsequent clinical research. In this paper, we present a semi-supervised learning framework for rare disease …
Increasing the efficiency of randomized trial estimates via linear adjustment for a prognostic scorestat.ML
Improves trial efficiency by adjusting for historical prognostic scores.
problem Reducing statistical uncertainty in randomized trial estimates.
method Linear covariate adjustment using a prognostic model trained on historical data.
result Prognostic covariate adjustment achieves minimum variance and reduces mean-squared error.
Information in electronic health records (EHR), such as clinical narratives, examination reports, lab measurements, demographics, and other patient encounter entries, can be transformed into appropriate data representations that can be used for downstream clinical machine learning tasks using representation learning. L…
Clinical researchers use disease progression models to understand patient status and characterize progression patterns from longitudinal health records. One approach for disease progression modeling is to describe patient status using a small number of states that represent distinctive distributions over a set of obser…
Facial pain expression is an important modality for assessing pain, especially when the patient's verbal ability to communicate is impaired. The facial muscle-based action units (AUs), which are defined by the Facial Action Coding System (FACS), have been widely studied and are highly reliable as a method for detecting…
Examines fairness in ML for health, highlighting its importance and challenges.
problem Ensuring fairness in ML models for health to prevent health disparities.
method Reviews fairness notions in ML for health, including group, individual, and causal-based approaches.
result Discusses the importance and challenges of fairness in health-focused ML applications.