Computing phase-locking values (PLVs) between EEG signals is becoming a popular measure for quantifying functional connectivity, because it affords a more detailed picture of the synchrony relationships between channels at different times and frequencies. However, the accompanying increase in data dimensionality incurs a serious multiple testing problem for determining PLV significance. Standard methods for controlling Type I error, which treat all hypotheses as belonging to a single family, can fail to detect any significant discoveries. Instead, we propose a novel application of a hierarchical FDR method, which subsumes multiple families, for detecting significant PLV effects. For simulations and experimental data, we show that the proposed hierarchical FDR method is most powerful. This method revealed significant synchrony effects in the expected regions at an acceptable error rate of 5%, where other methods, including standard FDR correction failed to reveal any significant effects.
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http://dx.doi.org/10.1016/j.neuroimage.2009.12.030 | DOI Listing |
Placenta
January 2025
Center for Developmental Biology and Regenerative Medicine, Seattle Children's Research Institute, Seattle, WA, 98101, USA; Department of Environmental and Occupational Health Sciences, University of Washington School of Public Health, Seattle, WA, 98195, USA; Department of Pediatrics, University of Washington School of Medicine, Seattle, WA, 98195, USA.
Introduction: Selecting an in vitro culture model of the human placenta is challenging due to representation of different trophoblast cell types with distinct biological roles and limited comparative studies that define key characteristics of these models. The aim of this research was to compare the transcriptomes of common in vitro models of the human placenta compared to bulk human placental tissue.
Methods: We performed differential gene expression analysis on publicly available transcriptomic data from 7 in vitro models of the human placenta (HTR-8/SVneo, BeWo, JEG-3, JAR, Primary Trophoblasts, Villous Explants, and Trophoblast Stem Cells) and compared to bulk placental tissue from 2 cohort studies (CANDLE and GAPPS) or individual trophoblast cell types derived from bulk placental tissue.
Alzheimers Res Ther
November 2024
State Key Laboratory of Cognitive Neuroscience and Learning, Beijing Normal University, Beijing, 100875, China.
Background: Cognitive decline with age has heterogeneous, which might be related to the accumulation of protective factors called cognitive reserve, especially intellectual engagement factors over the life course. However, how lifetime intellectual cognitive reserve (LICR) protects cognitive function in the elderly remains unclear. We aimed to examine the relationship between LICR and cognition and the mild cognitive impairment (MCI) risk, as well as the neural mechanism of LICR on cognition.
View Article and Find Full Text PDFJ Transl Med
November 2024
Department of Orthopaedic Surgery, Stanford University, 450 Broadway Street, Redwood City, CA, 94025, USA.
Introduction: Diagnosing infected joint replacements relies heavily on assessing the neutrophil response to bacteria. Bacteria form biofilms on joint replacements. Biofilms are sessile bacterial communities encased in a protective extracellular matrix, making them notoriously difficult to culture, remarkably tolerant to antibiotics, and able to evade phagocytosis.
View Article and Find Full Text PDFGenetics
November 2024
Department of Statistics and Probability, Michigan State University, East Lansing, MI 48824, USA.
Variable selection and large-scale hypothesis testing are techniques commonly used to analyze high-dimensional genomic data. Despite recent advances in theory and methodology, variable selection and inference with highly collinear features remain challenging. For instance, collinearity poses a great challenge in genome-wide association studies involving millions of variants, many of which may be in high linkage disequilibrium.
View Article and Find Full Text PDFJ Plast Reconstr Aesthet Surg
November 2024
Department of Plastic and Reconstructive Surgery, Dongsan Hospital, Keimyung University School of Medicine, Daegu, South Korea. Electronic address:
Background: Expanding on previous research on murine fat grafts' metabolic shift, this study delved deeper into the metabolic profiles of human adipose tissues, specifically the superficial subcutaneous adipose tissue (SSAT) and deep subcutaneous adipose tissue (DSAT).
Methods: Utilizing RNA sequencing, metabolomics, and metabolic flux analyses, SSAT and DSAT samples obtained during deep inferior epigastric perforator flap breast reconstructions were examined. Transcript data underwent unsupervised hierarchical clustering and Gene Set Enrichment Analysis.
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