A semi-automated DNA extraction process for casework samples based on the Promega DNA IQ™ system was optimized and validated on TECAN Genesis 150/8 and Freedom EVO robotic liquid handling stations configured with fixed tips and a TECAN TE-Shake™ unit. The use of an orbital shaker during the extraction process promoted efficiency with respect to DNA capture, magnetic bead/DNA complex washes and DNA elution. Validation studies determined the reliability and limitations of this shaker-based process. Reproducibility with regards to DNA yields for the tested robotic workstations proved to be excellent and not significantly different than that offered by the manual phenol/chloroform extraction. DNA extraction of animal:human blood mixtures contaminated with soil demonstrated that a human profile was detectable even in the presence of abundant animal blood. For exhibits containing small amounts of biological material, concordance studies confirmed that DNA yields for this shaker-based extraction process are equivalent or greater to those observed with phenol/chloroform extraction as well as our original validated automated magnetic bead percolation-based extraction process. Our data further supports the increasing use of robotics for the processing of casework samples.
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http://dx.doi.org/10.1016/j.fsigen.2009.11.001 | DOI Listing |
PLoS One
January 2025
GuiZhou Institute of Subtropical Crops, Guizhou Academy of Agricultural Sciences, Guiyang, China.
Background: Fracture disrupts the integrity and continuity of the bone, leading to symptoms such as pain, tenderness, swelling, and bruising. Rhizoma Musae is a medicinal material frequently utilized in the Miao ethnic region of Guizhou Province, China. However, its specific mechanism of action in treating fractures remains unknown.
View Article and Find Full Text PDFJ Patient Rep Outcomes
January 2025
Division of Oral Surgery and Orthodontics, Department of Dental Medicine and Oral Health, Medical University of Graz, Graz, Austria.
Purpose: Zirconia dental implants show excellent biocompatibility and tissue integration, low affinity for plaque, and favorable biomechanical properties. However, these objective measures do not adequately replicate the patient's perception. This systematic review evaluated the evidence on patient-reported outcome (PROs) in zirconia dental implant treatment.
View Article and Find Full Text PDFBrief Bioinform
November 2024
School of Artificial Intelligence, Jilin University, 3003 Qianjin Street, 130012 Changchun, China.
Accurate identification of causal genes for cancer prognosis is critical for estimating disease progression and guiding treatment interventions. In this study, we propose CPCG (Cancer Prognosis's Causal Gene), a two-stage framework identifying gene sets causally associated with patient prognosis across diverse cancer types using transcriptomic data. Initially, an ensemble approach models gene expression's impact on survival with parametric and semiparametric hazard models.
View Article and Find Full Text PDFEnviron Sci Process Impacts
January 2025
Massachusetts Institute of Technology, Department of Civil and Environmental Engineering, Parsons Laboratory, 15 Vassar Street, Cambridge, Massachusetts 02139, USA.
The high salinity and organic content in oil and gas wastewaters can cause ion suppression during liquid chromatography mass spectrometry (LC/MS) analysis, diminishing the sensitivity and accuracy of measurements in available methods. This suppression is severe for low molecular weight organic compounds such as ethanolamines (, monoethanolamine (MEA), diethanolamine (DEA), triethanolamine (TEA), -methyldiethanolamine (MDEA), and ,-ethyldiethanolamine (EDEA)). Here, we deployed solid phase extraction (SPE), mixed-mode LC, triple quadrupole MS with positive electrospray ionization (ESI), and a suite of stable isotope standards (, one per target compound) to correct for ion suppression by salts and organic matter, SPE losses, and instrument variability.
View Article and Find Full Text PDFRadiology
January 2025
From the Department of Diagnostic and Interventional Radiology, University Hospital Bonn, Venusberg-Campus 1, 53127 Bonn, Germany.
Background Large-scale secondary use of clinical databases requires automated tools for retrospective extraction of structured content from free-text radiology reports. Purpose To share data and insights on the application of privacy-preserving open-weights large language models (LLMs) for reporting content extraction with comparison to standard rule-based systems and the closed-weights LLMs from OpenAI. Materials and Methods In this retrospective exploratory study conducted between May 2024 and September 2024, zero-shot prompting of 17 open-weights LLMs was preformed.
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