AIMC Topic: Reproducibility of Results

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CRISPRpred(SEQ): a sequence-based method for sgRNA on target activity prediction using traditional machine learning.

BMC bioinformatics
BACKGROUND: The latest works on CRISPR genome editing tools mainly employs deep learning techniques. However, deep learning models lack explainability and they are harder to reproduce. We were motivated to build an accurate genome editing tool using ...

Machine learning paradigm for dynamic contrast-enhanced MRI evaluation of expanding bladder.

Frontiers in bioscience (Landmark edition)
Delineation of the bladder under a dynamic contrast enhanced (DCE)-MRI protocol requires robust segmentation. However, this method is subject to errors due to variations in the content of fluid within the bladder, as well as presence of air and simil...

Neuro4Neuro: A neural network approach for neural tract segmentation using large-scale population-based diffusion imaging.

NeuroImage
Subtle changes in white matter (WM) microstructure have been associated with normal aging and neurodegeneration. To study these associations in more detail, it is highly important that the WM tracts can be accurately and reproducibly characterized fr...

CAST: A multi-scale convolutional neural network based automated hippocampal subfield segmentation toolbox.

NeuroImage
In this study, we developed a multi-scale Convolutional neural network based Automated hippocampal subfield Segmentation Toolbox (CAST) for automated segmentation of hippocampal subfields. Although training CAST required approximately three days on a...

Potential of deep learning in assessing pneumoconiosis depicted on digital chest radiography.

Occupational and environmental medicine
OBJECTIVES: To investigate the potential of deep learning in assessing pneumoconiosis depicted on digital chest radiographs and to compare its performance with certified radiologists.

An Efficient Skin Cancer Diagnostic System Using Bendlet Transform and Support Vector Machine.

Anais da Academia Brasileira de Ciencias
Skin is the outermost and largest organ of the human body that protects us from the external agents. Among the various types of diseases affecting the skin, melanoma (skin cancer) is the most dangerous and deadliest disease. Though it is one of the d...

Detection of Intestinal Protozoa in Trichrome-Stained Stool Specimens by Use of a Deep Convolutional Neural Network.

Journal of clinical microbiology
Intestinal protozoa are responsible for relatively few infections in the developed world, but the testing volume is disproportionately high. Manual light microscopy of stool remains the gold standard but can be insensitive, time-consuming, and diffic...

Developing knowledge-based planning for gynaecological and rectal cancers: a clinical validation of RapidPlan.

Journal of medical radiation sciences
INTRODUCTION: To create and clinically validate knowledge-based planning (KBP) models for gynaecologic (GYN) and rectal cancer patients. Assessment of ecologic generalisability and predictive validity of conventional planning versus single calculatio...

Developing an Improved Statistical Approach for Survival Estimation in Bone Metastases Management: The Bone Metastases Ensemble Trees for Survival (BMETS) Model.

International journal of radiation oncology, biology, physics
PURPOSE: To determine whether a machine learning approach optimizes survival estimation for patients with symptomatic bone metastases (SBM), we developed the Bone Metastases Ensemble Trees for Survival (BMETS) to predict survival using 27 prognostic ...

A biochemically-interpretable machine learning classifier for microbial GWAS.

Nature communications
Current machine learning classifiers have successfully been applied to whole-genome sequencing data to identify genetic determinants of antimicrobial resistance (AMR), but they lack causal interpretation. Here we present a metabolic model-based machi...