In November 2009, scientists from the US, UK, and other countries announced the complete genome sequence draft of the domestic pig. With the release of improved versions of the pig genome assembly and the increase of correctly assembled sequenced fragments over the past two years, it is particularly urgent to have the pig genes annotated at whole-genome level. This article is aimed at introducing an excellent manual annotation tool, Otterlace software, developed by Sanger institute. We used CFL1 (Cofilin 1) gene as an example to expound the usage of the three main components of Otterlace, Zmap, Blixem, and Dotter tools, and developed a practical procedure for manual annotations. We have analyzed 243 immune-related genes, among which 180 genes have been completely or partially annotated, offering novel information to the porcine functional genomics.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.3724/sp.j.1005.2012.01339 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Automated MRI pituitary structured reporting from free-text using a fine-tuned Llama model: a feasibility study.
Jpn J Radiol
December 2024
MRI Unit, Radiology Department, HT Medica. Carmelo Torres nº2, 23007, Jaén, Spain.
Background And Objective: Structured reports in radiology have demonstrated substantial advantages over unstructured ones. However, the transition from unstructured to structured reporting can face challenges, as experienced radiologists worry about the potential loss of valuable information. In this study, we fine-tuned the Llama 2 model capable of generating structured pituitary MRI reports from unstructured reports.
View Article and Find Full Text PDFAn image and video dataset of nesting green sea turtles with annotated data.
Sci Data
December 2024
Sarawak Forestry Corporation, Sarawak, 93250, Malaysia.
Photo- and video-based reidentification of green sea turtles using their natural markers is far less invasive than artificial tagging. An RGB camera mounted on a man-portable rig, was used to collect video data on Greater Talang Island (1 °54'45″N 109 °46'33″E) from September to October 2022, and September 2023. This islet is located 30 minutes offshore from the Sematan district in Southwest Sarawak, Malaysia.
View Article and Find Full Text PDFThe optimal labelling method for artificial intelligence-assisted polyp detection in colonoscopy.
J Formos Med Assoc
December 2024
Endoscopy Center for Diagnosis and Treatment, Taipei Veterans General Hospital, Taiwan; Division of Gastroenterology, Taipei Veterans General Hospital, Taiwan; Institute of Brain Science, National Yang Ming Chiao Tung University School of Medicine, Taiwan. Electronic address:
Background: The methodology in colon polyp labeling in establishing database for ma-chine learning is not well-described and standardized. We aimed to find out the best annotation method to generate the most accurate model in polyp detection.
Methods: 3542 colonoscopy polyp images were obtained from endoscopy database of a tertiary medical center.
A Software Tool for Rapid and Automated Preprocessing of Large-Scale Serum Metabolomic Data by Multisegment Injection-Capillary Electrophoresis-Mass Spectrometry.
Anal Chem
December 2024
Department of Chemistry and Chemical Biology, McMaster University, Hamilton, Ontario L8S 4M1, Canada.
Mass spectrometry (MS)-based metabolomics often rely on separation techniques when analyzing complex biological specimens to improve method resolution, metabolome coverage, quantitative performance, and/or unknown identification. However, low sample throughput and complicated data preprocessing procedures remain major barriers to affordable metabolomic studies that are scalable to large populations. Herein, we introduce PeakMeister as a new software tool in the R statistical environment to enable standardized processing of serum metabolomic data acquired by multisegment injection-capillary electrophoresis-mass spectrometry (MSI-CE-MS), a high-throughput separation platform (<4 min/sample) which takes advantage of a serial injection format of 13 samples within a single analytical run.
View Article and Find Full Text PDFAneRBC dataset: a benchmark dataset for computer-aided anemia diagnosis using RBC images.
Database (Oxford)
December 2024
School of Computing and Mathematical Sciences, University of Leicester, University Road, Leicester LE1 7RH, UK.
Visual analysis of peripheral blood smear slides using medical image analysis is required to diagnose red blood cell (RBC) morphological deformities caused by anemia. The absence of a complete anaemic RBC dataset has hindered the training and testing of deep convolutional neural networks (CNNs) for computer-aided analysis of RBC morphology. We introduce a benchmark RBC image dataset named Anemic RBC (AneRBC) to overcome this problem.
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!