Many image analysis systems are available for processing the images produced by laser scanning of DNA microarrays. The image processing system takes pixel-level intensity data and converts it to a set of gene-level expression or copy number summaries that will be used in further analyses. Image analysis systems currently in use differ with regard to the specific algorithms they implement, ease of use, and cost. Thus, it would be desirable to have an objective means of comparing systems. Here we describe a systematic method of comparing image processing results produced by different image analysis systems using a series of replicate microarray experiments. We demonstrate the method with a comparison of cDNA microarray data generated by the UCSF Spot and the GenePix image processing systems.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.2144/04366BI01 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Comparison of crystal violet staining, microscopy with image analysis, and quantitative PCR to examine biofilm dynamics.
FEMS Microbiol Lett
December 2024
Department of Microbiology, Pusan National University, Pusan 46241, Korea.
Crystal-violet staining, microscopy with image analysis, and quantitative PCR (qPCR) were compared to examine biofilm dynamics. Biofilms of 30 polycultures comprising 15 bacterial species were monitored for 14 days. Collectively, qPCR (representing population) revealed a different growth pattern compared to staining (biomass) and microscopy (colonization): biomass and colonization gradually increased over time, whereas population increased rapidly for the first seven days and leveled off.
View Article and Find Full Text PDFMulti-Energy Evaluation of Image Quality in Spectral CT Pulmonary Angiography Using Different Strength Deep Learning Spectral Reconstructions.
Acad Radiol
December 2024
Radiomics and Augmented Intelligence Laboratory (RAIL), Department of Radiology and the Norman Fixel Institute for Neurological Diseases, University of Florida College of Medicine, Gainesville, FL (M.H-S., H.S.S., A.G.R., S.E.M., J.C.P., E.Y.A., B.H., R.F.); Department of Radiology, University of Florida College of Medicine, Gainesville, FL (M.H-S., H.S.S., A.G.R., J.C.P., E.Y.A., B.H., R.F.); Division of Medical Physics, University of Florida College of Medicine, Gainesville, FL (R.F.); Department of Neurology, Division of Movement Disorders, University of Florida College of Medicine, Gainesville, FL (R.F.); Department of Otolaryngology - Head and Neck Surgery, McGill University, Montreal, Quebec, Canada (R.F.); Department of Radiology, AdventHealth Medical Group, Maitland, FL (R.F.). Electronic address:
Rationale And Objectives: To evaluate and compare image quality of different energy levels of virtual monochromatic images (VMIs) using standard versus strong deep learning spectral reconstruction (DLSR) on dual-energy CT pulmonary angiogram (DECT-PA).
Materials And Methods: A retrospective study was performed on 70 patients who underwent DECT-PA (15 PE present; 55 PE absent) scans. VMIs were reconstructed at different energy levels ranging from 35 to 200 keV using standard and strong levels with deep learning spectral reconstruction.
Early Lung Adenocarcinoma Manifesting as Irregular Subsolid Nodules: Clinical and CT Characteristics.
Acad Radiol
December 2024
Department of Radiology, The First Affiliated Hospital of Chongqing Medical University, No. 1 Youyi Road, Yuzhong District, Chongqing 400016, China (P.-l.Z., T.-y.L., F.-j.L., Q.L.). Electronic address:
Rationale And Objectives: To explore the clinical and computed tomography (CT) characteristics of early-stage lung adenocarcinoma (LADC) that presents with an irregular shape.
Materials And Methods: The CT data of 575 patients with stage IA LADC and 295 with persistent inflammatory lesion (PIL) manifesting as subsolid nodules (SSNs) were analyzed retrospectively. Among these patients, we selected 233 patients with LADC and 140 patients with PIL, who showed irregular SSNs, hereinafter referred to as irregular LADC (I-LADC) and irregular PIL (I-PIL), respectively.
Development and Validation of a Nomogram Based on Multiparametric MRI for Predicting Lymph Node Metastasis in Endometrial Cancer: A Retrospective Cohort Study.
Acad Radiol
December 2024
Department of Radiology, The First Affiliated Hospital of Guangxi Medical University, Nanning, China (Y.T., Y.W., Y.Y., X.Q., Y.H., J.L.); Key Laboratory of Early Prevention and Treatment for Regional High Frequency Tumor (Guangxi Medical University), Ministry of Education, Nanning 530021, Guangxi Zhuang Autonomous Region, PR China (J.L.). Electronic address:
Rationale And Objectives: To develop a radiomics nomogram based on clinical and magnetic resonance features to predict lymph node metastasis (LNM) in endometrial cancer (EC).
Materials And Methods: We retrospectively collected 308 patients with endometrial cancer (EC) from two centers. These patients were divided into a training set (n=155), a test set (n=67), and an external validation set (n=86).
Linking structural and functional changes during healthy aging and semantic dementia using multilayer brain network analysis.
Cortex
December 2024
Normandie Univ, UNICAEN, PSL Université Paris, EPHE, Inserm, U1077, CHU de Caen, Centre Cyceron, Neuropsychologie et Imagerie de la Mémoire Humaine, Caen, France. Electronic address:
Healthy aging is characterized by frontal and diffuse brain changes, while certain age-related pathologies such as semantic dementia will be associated with more focal brain lesions, particularly in the temporo-parietal regions. These changes in structural integrity could influence functional brain networks. Here we use multilayer brain network analysis on structural (DWI) and functional (fMRI) data in younger and older healthy individuals and patients with semantic dementia.
View Article and Find Full Text PDFWant AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!