AIMC Topic: Machine Learning

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PrankWeb 4: a modular web server for protein-ligand binding site prediction and downstream analysis.

Nucleic acids research
Knowledge of protein-ligand binding sites (LBSs) is crucial for advancing our understanding of biology and developing practical applications in fields such as medicine or biotechnology. PrankWeb is a web server that allows users to predict LBSs from ...

CGeNArateWeb: a web server for the atomistic study of the structure and dynamics of chromatin fibers.

Nucleic acids research
We present CGeNArateWeb, a new web tool for the three-dimensional simulation of naked DNA and protein-bound chromatin fibers. The server allows the user to obtain a dynamic representation of long segments of linear, circular, or protein-DNA segments ...

Modeling the Determinants of Subjective Well-Being in Schizophrenia.

Schizophrenia bulletin
BACKGROUND: The ultimate goal of successful schizophrenia treatment is not just to alleviate psychotic symptoms, but also to reduce distress and achieve subjective well-being (SWB). We aimed to identify the determinants of SWB and their interrelation...

Model updating strategy study about sex identification of silkworm pupae using transfer learning and NIR spectroscopy.

Spectrochimica acta. Part A, Molecular and biomolecular spectroscopy
This paper proposes a novel model updating strategy named SilkwormNet for the first time to address the sex discrimination problem of silkworm pupae with new species. SilkwormNet integrates a ResNet block, a multi-head attention mechanism, and a Sche...

Paving a Path to Clinical Impact with Radiomics: Enabling Reproducibility and Reach.

Cancer research
Radiomics, the extraction of quantitative data from images, holds promise for noninvasively characterizing tumor phenotypes. Tools like LIFEx have improved the accessibility, transparency, and reproducibility of radiomic feature extraction by offerin...

Leveraging Whole-Exome Sequencing and Mutational Signatures to Detect Homologous Recombination Deficiency in Cancer.

Cancer research
Homologous recombination is a high-fidelity DNA repair mechanism essential for maintaining genome stability. Impairment of this pathway, often due to BRCA1 or BRCA2 inactivation, leads to homologous recombination deficiency (HRD), forcing cells to re...

HRProfiler Detects Homologous Recombination Deficiency in Breast and Ovarian Cancers Using Whole-Genome and Whole-Exome Sequencing Data.

Cancer research
UNLABELLED: Breast and ovarian cancers harboring homologous recombination deficiency (HRD) are sensitive to PARP inhibitors and platinum chemotherapy. Conventionally, detecting HRD involves screening for defects in BRCA1, BRCA2, and other relevant ge...

Combining Spatial Transcriptomics, Pseudotime, and Machine Learning Enables Discovery of Biomarkers for Prostate Cancer.

Cancer research
UNLABELLED: Early cancer diagnosis is crucial but challenging owing to the lack of reliable biomarkers that can be measured using routine clinical methods. The identification of biomarkers for early detection is complicated by each tumor involving ch...

Global Thyroid Cancer Patterns and Predictive Analytics: Integrating Machine Learning for Advanced Diagnostic Modelling.

Journal of cellular and molecular medicine
BACKGROUND: The global increase in thyroid cancer prevalence, particularly among female populations, underscores critical gaps in our understanding of molecular pathogenesis and diagnostic capabilities. Our investigation addresses these knowledge def...

A supervised machine learning approach for predicting the need for postsurgical intervention in acromegaly.

Neurosurgical focus
OBJECTIVE: Patients with growth hormone (GH)-secreting pituitary adenomas (PAs) experience various symptoms and comorbidities, which can ultimately lead to increased mortality. This study aimed to develop and validate a machine learning (ML) model fo...