AIMC Topic: Algorithms

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GFD-Net: A novel semantic similarity methodology for the analysis of gene networks.

Journal of biomedical informatics
Since the popularization of biological network inference methods, it has become crucial to create methods to validate the resulting models. Here we present GFD-Net, the first methodology that applies the concept of semantic similarity to gene network...

GuideScan software for improved single and paired CRISPR guide RNA design.

Nature biotechnology
We present GuideScan software for the design of CRISPR guide RNA libraries that can be used to edit coding and noncoding genomic regions. GuideScan produces high-density sets of guide RNAs (gRNAs) for single- and paired-gRNA genome-wide screens. We a...

Prediction of potent shRNAs with a sequential classification algorithm.

Nature biotechnology
We present SplashRNA, a sequential classifier to predict potent microRNA-based short hairpin RNAs (shRNAs). Trained on published and novel data sets, SplashRNA outperforms previous algorithms and reliably predicts the most efficient shRNAs for a give...

Extracting microRNA-gene relations from biomedical literature using distant supervision.

PloS one
Many biomedical relation extraction approaches are based on supervised machine learning, requiring an annotated corpus. Distant supervision aims at training a classifier by combining a knowledge base with a corpus, reducing the amount of manual effor...

Unsupervised ensemble ranking of terms in electronic health record notes based on their importance to patients.

Journal of biomedical informatics
BACKGROUND: Allowing patients to access their own electronic health record (EHR) notes through online patient portals has the potential to improve patient-centered care. However, EHR notes contain abundant medical jargon that can be difficult for pat...

Respiratory motion compensation for the robot-guided laser osteotome.

International journal of computer assisted radiology and surgery
PURPOSE: The use of a robot-guided laser osteotome for median sternotomy is impeded by prohibiting cutting inaccuracies due to respiration-induced motions of the thorax. With this paper, we advance today's methodologies in sternotomy procedures by in...

Multistability of the Brain Network for Self-other Processing.

Scientific reports
Early fMRI studies suggested that brain areas processing self-related and other-related information were highly overlapping. Hypothesising functional localisation of the cortex, researchers have tried to locate "self-specific" and "other-specific" re...

Research and Application of an Air Quality Early Warning System Based on a Modified Least Squares Support Vector Machine and a Cloud Model.

International journal of environmental research and public health
The worsening atmospheric pollution increases the necessity of air quality early warning systems (EWSs). Despite the fact that a massive amount of investigation about EWS in theory and practicality has been conducted by numerous researchers, studies ...

Leveraging electronic health records for predictive modeling of post-surgical complications.

Statistical methods in medical research
Hospital-specific electronic health record systems are used to inform clinical practice about best practices and quality improvements. Many surgical centers have developed deterministic clinical decision rules to discover adverse events (e.g. postope...

Robust Control of a Cable-Driven Soft Exoskeleton Joint for Intrinsic Human-Robot Interaction.

IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society
A novel, cable-driven soft joint is presented for use in robotic rehabilitation exoskeletons to provide intrinsic, comfortable human-robot interaction. The torque-displacement characteristics of the soft elastomeric core contained within the joint ar...