Comparison of Brachypodium with rice and sorghum (SyMap)
The JAX Synteny Browser for mouse-human comparative genomics.
visualize regions of conserved synteny between the two genomes is supported by various software applications. However, none of the current application allows researchers to select genomic feature to display or highlight in synteny blocks based biological properties described features (eg, types, functions, and / or associated phenotype). To overcome the usability gap, we developed a web-based browser conserved synteny interactive, The Jackson Laboratory (JAX) Synteny Browser. The browser allows researchers to selectively highlight or feature in the reference genome display and / or genome comparison in accordance with the biological attributes of features.
Although the implementation is currently limited to the browser on the reference genome for the laboratory mouse and human, this software platform agnostic deliberately genome. JAX Synteny Browser software can be used for any two genomes where the genome coordinates for syntenic blocks and attributes defined biological features in one or both genomes available in the widely used standard bioinformatics file formats. JAX Synteny Browser available in: Base code is available from GitHub: Browser and distributed under the Creative Commons Attribution (CC BY).
The advent of high-throughput next-generation sequencing technologies and assembly algorithm improvements have occurred thick accumulation of genomic data in the public domain. This has opened up entry for large scale comparative genome studies, particularly the identification of syntenic block conserved between species, facilitating conservation and evolutionary importance of variation in genome organization. Synteny construction and visualization requires computational and bioinformatics skills to prepare input files for synteny analysis pipeline. Syntenic information on the fish still in the stage of adolescence and scattered in different research domains.
Here, we present a web-based tool ‘Evol2Circos’ to give GUI- user-friendly and web-based tools for analyzing user-specific data for construction synteny and visualization, and to facilitate information browsing using different fish syntenic circos, bar, dual and dot plot. The information generated from this tool can also be used for further downstream analysis. Evol2Circos tested software under Ubuntu Linux. Web-browser, source code, documentation, user guides, example datasets and scripts available
The JAX Synteny Browser for mouse-human comparative genomics.
Aniseed 2019: 4D exploration of genetic data for an extended range of tunicates.
Anise is the premier model organism database for the worldwide community of scientists working on the tunicates, sister-group of vertebrates. Information provided for each species, including functional-described genes and transcripts orthology relationship models with the tunicates, and echinoderms, cephalochordates and vertebrates.
Outside the system genes describe other genetic elements, including repetitive elements and cis-regulatory modules. Gene expression profiles of several thousand genes are formalized in both wild-type and experimental conditions-manipulated, using anatomy formal ontology. This data can be explored through three complementary types of browsers, each offering a different view-point.
Description: This mAb shows specificity to E. coli O157 in a simple ELISA. Escherichia coli are Gram negative bacterium that are commonly found in the lower intestine of warm-blooded organisms (endotherms). Their serological types are determined in combination with somatic antigens (O group: O1-O173) and flagella antigens (H type: H1-H56). The E. coli that cause intestinal infectious diseases including diarrhea, acute gastritis or colitis are referred to as pathogenic E. coli, which are classified into the following four groups according to differences in the mode of pathogenicity; enteropathogenic E. coli (EPEC), enteroinvasive E. coli (EIEC), enterotoxigenic E. coli (ETEC) and enterohemorrhagic E. coli (EHEC). Although the identification of pathogenic E. coli requires verification of their pathogenicity, pathogenic E. coli often have specific serotypes; therefore, typing of the serogroup and serotype is necessary in screening pathogenic E. coli.
Description: This mAb shows specificity to E. coli O157 in a simple ELISA. Escherichia coli are Gram negative bacterium that are commonly found in the lower intestine of warm-blooded organisms (endotherms). Their serological types are determined in combination with somatic antigens (O group: O1-O173) and flagella antigens (H type: H1-H56). The E. coli that cause intestinal infectious diseases including diarrhea, acute gastritis or colitis are referred to as pathogenic E. coli, which are classified into the following four groups according to differences in the mode of pathogenicity; enteropathogenic E. coli (EPEC), enteroinvasive E. coli (EIEC), enterotoxigenic E. coli (ETEC) and enterohemorrhagic E. coli (EHEC). Although the identification of pathogenic E. coli requires verification of their pathogenicity, pathogenic E. coli often have specific serotypes; therefore, typing of the serogroup and serotype is necessary in screening pathogenic E. coli.
Description: This mAb shows specificity to E. coli O157 in a simple ELISA. Escherichia coli are Gram negative bacterium that are commonly found in the lower intestine of warm-blooded organisms (endotherms). Their serological types are determined in combination with somatic antigens (O group: O1-O173) and flagella antigens (H type: H1-H56). The E. coli that cause intestinal infectious diseases including diarrhea, acute gastritis or colitis are referred to as pathogenic E. coli, which are classified into the following four groups according to differences in the mode of pathogenicity; enteropathogenic E. coli (EPEC), enteroinvasive E. coli (EIEC), enterotoxigenic E. coli (ETEC) and enterohemorrhagic E. coli (EHEC). Although the identification of pathogenic E. coli requires verification of their pathogenicity, pathogenic E. coli often have specific serotypes; therefore, typing of the serogroup and serotype is necessary in screening pathogenic E. coli.
Description: This product includes all the kit components in E. coli DNA Primase Assay Kit (Catalog No. EGA100K ) plus 45 ul of 100 x E. coli primase-helicase complex. It is for 100 assays of E.coli DNA primase reactions in a 96-well plate format or 200 assays in 384-well assay format.
E. coli RNA polymerase Assay Kit Plus (E. coli RNA polymerase included)
Description: This product includes all the reagents in E. coli RNA Polymerase Assay Kit (Catalog number RPA100K) plus the enzyme, 33 ul of 100 x E. coli RNAP. It is for 100 assays of E. coli RNA polymerase reactions in a 384-well assay format.
Escherichia coli Serotype O2 (E. coli O2) Antibody
Description: Affinity purified Goat polyclonal E. coli O157:H7 antibody.
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Browser summarizes the development of gene- or information-centric region. advanced genome browsers integrate genetic features of genes or sets of genes within a species vicinity. synteny Browser A Genomicus explore the local gene sequence conservation throughout deuterostome. This new release includes an extended taxonomic variety of 14 species, including for the first time non-ascidian species, which appendicularian Oikopleura dioica.
