AIMC Topic: Deep Learning

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Deep learning to estimate lung disease mortality from chest radiographs.

Nature communications
Prevention and management of chronic lung diseases (asthma, lung cancer, etc.) are of great importance. While tests are available for reliable diagnosis, accurate identification of those who will develop severe morbidity/mortality is currently limite...

Deep learning models to predict the editing efficiencies and outcomes of diverse base editors.

Nature biotechnology
Applications of base editing are frequently restricted by the requirement for a protospacer adjacent motif (PAM), and selecting the optimal base editor (BE) and single-guide RNA pair (sgRNA) for a given target can be difficult. To select for BEs and ...

Automatic method based on deep learning to identify and account Rhipicephalus microplus larval hatching.

Medical and veterinary entomology
Reports of Rhipicephalus microplus resistant populations worldwide have increased extensively, making it difficult to control this ectoparasite. The adult immersion test, commonly used to screen for acaricide resistance, produces the results only aft...

Exogenous Chemicals Impact Virus Receptor Gene Transcription: Insights from Deep Learning.

Environmental science & technology
Despite the fact that coronavirus disease 2019 (COVID-19), caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), has been disrupting human life and health worldwide since the outbreak in late 2019, the impact of exogenous substance ...

Quantification of spatially localized MRS by a novel deep learning approach without spectral fitting.

Magnetic resonance in medicine
PURPOSE: To propose a novel end-to-end deep learning model to quantify absolute metabolite concentrations from in vivo J-point resolved spectroscopy (JPRESS) without using spectral fitting.

Enhancing Total Optical Throughput of Microscopy with Deep Learning for Intravital Observation.

Small methods
The significance of performing large-depth dynamic microscopic imaging in vivo for life science research cannot be overstated. However, the optical throughput of the microscope limits the available information per unit of time, i.e., it is difficult ...

A deep learning approach for medication disposition and corresponding attributes extraction.

Journal of biomedical informatics
OBJECTIVE: This article summarizes our approach to extracting medication and corresponding attributes from clinical notes, which is the focus of track 1 of the 2022 National Natural Language Processing (NLP) Clinical Challenges(n2c2) shared task.

A systematic review of biologically-informed deep learning models for cancer: fundamental trends for encoding and interpreting oncology data.

BMC bioinformatics
BACKGROUND: There is an increasing interest in the use of Deep Learning (DL) based methods as a supporting analytical framework in oncology. However, most direct applications of DL will deliver models with limited transparency and explainability, whi...

A general model to predict small molecule substrates of enzymes based on machine and deep learning.

Nature communications
For most proteins annotated as enzymes, it is unknown which primary and/or secondary reactions they catalyze. Experimental characterizations of potential substrates are time-consuming and costly. Machine learning predictions could provide an efficien...

Rapid protein stability prediction using deep learning representations.

eLife
Predicting the thermodynamic stability of proteins is a common and widely used step in protein engineering, and when elucidating the molecular mechanisms behind evolution and disease. Here, we present RaSP, a method for making rapid and accurate pred...