Emerging areas of scientific research never arise in a social or intellectual vacuum, but must establish themselves in relation to well-established disciplines. This necessity poses challenges for scientists who must not only create a new disciplinary identity, but must also defend their research from criticism and even condescension from other scientists. The early use of sequence databases provides an excellent case study for examining the challenges facing novel sciences. The need for sequence databases grew out of protein sequencing in biochemistry beginning in the late 1950s. The rapid increase in the number of sequences made databases an attractive resource, but protein biochemists often considered building, managing, and doing research with databases a "second-rate" science. Similarly, computational biologists who used databases and digital computers to study evolutionary phenomena faced criticism from more traditional evolutionary biologists. In retrospect, one can see this early computational biology as laying important foundations for the bioinformatics, molecular evolution, and molecular systematics of today. However, within the context of the 1960s, establishing a scientific identity posed serious challenges for Margaret Dayhoff, Walter Fitch, and Russell Doolittle and other computational biologists who used computers and databases to investigate evolutionary problems.
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http://dx.doi.org/10.1007/978-1-60761-987-1_4 | DOI Listing |
PLoS One
January 2025
Danau Girang Field Centre, c/o Sabah Wildlife Department, Kota Kinabalu, Malaysia.
Characterizing the feeding ecology of threatened species is essential to establish appropriate conservation strategies. We focused our study on the proboscis monkey (Nasalis larvatus), an endangered primate species which is endemic to the island of Borneo. Our survey was conducted in the Lower Kinabatangan Wildlife Sanctuary (LKWS), a riverine protected area that is surrounded by oil palm plantations.
View Article and Find Full Text PDFNeuromolecular Med
December 2024
Key Laboratory of Physical Fitness and Exercise Rehabilitation of Hunan Province, College of Physical Education, Hunan Normal University, Changsha, 410012, China.
Alzheimer's disease (AD) is the most common neurodegenerative disorder. The neuropathology of AD appears in the hippocampus. The purpose of this work was to reveal key differentially expressed genes (DEGs) in the hippocampus of AD patients and healthy individuals.
View Article and Find Full Text PDFBrief Bioinform
November 2024
School of Computer Science, Northwestern Polytechnical University, Xi'an, 710072 Shaanxi, China.
The identification of cancer driver genes is crucial for understanding the complex processes involved in cancer development, progression, and therapeutic strategies. Multi-omics data and biological networks provided by numerous databases enable the application of graph deep learning techniques that incorporate network structures into the deep learning framework. However, most existing methods do not account for the heterophily in the biological networks, which hinders the improvement of model performance.
View Article and Find Full Text PDFEur Radiol
January 2025
Department of Radiology, The Third Affiliated Hospital of Sun Yat-sen University, Guangzhou, China.
Objectives: To explore the reproducibility of the 1.5-T MR imaging (MRI)-based R2* method in measuring the liver iron concentration (LIC) across different MRI scanners, scan parameters, and postprocessing techniques.
Materials And Methods: We performed a systematic search of the PubMed, Embase, Medline, Cochrane Library, and Web of Science databases and identified studies that used the 1.
Alzheimers Dement
December 2024
Vanderbilt Genetics Institute, Vanderbilt University Medical Center, Nashville, TN, USA.
Background: Genome-wide association studies (GWAS) in Alzheimer's disease (AD) leveraging endophenotypes beyond case/control diagnosis, such as brain amyloid β pathology, have shown promise in identifying novel variants and understanding their potential functional impact. In this study, we leverage two brain amyloid β pathology measurement modalities, PET imaging and neuropathology, to address sample size limitations and to discover novel genetic drivers of disease.
Method: We conducted a meta-analysis on an amyloid PET imaging GWAS (N = 7,036, 35% amyloid positive, 53.
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