AIMC Topic: Datasets as Topic

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Cohort selection for clinical trials: n2c2 2018 shared task track 1.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: Track 1 of the 2018 National NLP Clinical Challenges shared tasks focused on identifying which patients in a corpus of longitudinal medical records meet and do not meet identified selection criteria.

Real world evidence in cardiovascular medicine: ensuring data validity in electronic health record-based studies.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: With growing availability of digital health data and technology, health-related studies are increasingly augmented or implemented using real world data (RWD). Recent federal initiatives promote the use of RWD to make clinical assertions th...

CAESNet: Convolutional AutoEncoder based Semi-supervised Network for improving multiclass classification of endomicroscopic images.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: This article presents a novel method of semisupervised learning using convolutional autoencoders for optical endomicroscopic images. Optical endomicroscopy (OE) is a newly emerged biomedical imaging modality that can support real-time clin...

Toward a clinical text encoder: pretraining for clinical natural language processing with applications to substance misuse.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: Our objective is to develop algorithms for encoding clinical text into representations that can be used for a variety of phenotyping tasks.

Primer on machine learning: utilization of large data set analyses to individualize pain management.

Current opinion in anaesthesiology
PURPOSE OF REVIEW: Pain researchers and clinicians increasingly encounter machine learning algorithms in both research methods and clinical practice. This review provides a summary of key machine learning principles, as well as applications to both s...

Generalizable Inter-Institutional Classification of Abnormal Chest Radiographs Using Efficient Convolutional Neural Networks.

Journal of digital imaging
Our objective is to evaluate the effectiveness of efficient convolutional neural networks (CNNs) for abnormality detection in chest radiographs and investigate the generalizability of our models on data from independent sources. We used the National ...

Prior to Initiation of Chemotherapy, Can We Predict Breast Tumor Response? Deep Learning Convolutional Neural Networks Approach Using a Breast MRI Tumor Dataset.

Journal of digital imaging
We hypothesize that convolutional neural networks (CNN) can be used to predict neoadjuvant chemotherapy (NAC) response using a breast MRI tumor dataset prior to initiation of chemotherapy. An institutional review board-approved retrospective review o...

HMMRATAC: a Hidden Markov ModeleR for ATAC-seq.

Nucleic acids research
ATAC-seq has been widely adopted to identify accessible chromatin regions across the genome. However, current data analysis still utilizes approaches initially designed for ChIP-seq or DNase-seq, without considering the transposase digested DNA fragm...

RIL-Contour: a Medical Imaging Dataset Annotation Tool for and with Deep Learning.

Journal of digital imaging
Deep-learning algorithms typically fall within the domain of supervised artificial intelligence and are designed to "learn" from annotated data. Deep-learning models require large, diverse training datasets for optimal model convergence. The effort t...