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    Welcome

    Aquaculture Molecular Breeding Platform (AMBP) is a portal for genetic data analysis in aquatic species of farming interest. AMBP integrates pipelines for genotype imputation, kinship deduction, population structure inference,  genome-wide association study (GWAS), genomic selection (GS), and genomic mating (GM). It also provides a public-domain archive for genetic variants and haplotype reference panels of 18 aquaculture species.

    Citation:
    Qifan Zeng+, Baojun Zhao+, Hao Wang+, Mengqiu Wang, Mingxuan Teng, Jingjie Hu, Zhenmin Bao, Yangfan Wang*. (2022) Aquaculture Molecular Breeding Platform (AMBP): a comprehensive web server for genotype imputation and genetic analysis in aquaculture. Nucleic Acids Research, gkac424, https://doi.org/10.1093/nar/gkac424.

    Resources and Tools

    User Tutorial

    Reference Panel

    SNP Search

    Imputation

    Genetic Structure

    Kinship

    GWAS

    Genomic Selection

    Genomic Mating

    Download

    Browse by species

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    Notifications

    ● The Platform for High-Performance Computing and Systematic Simulation at Qingdao National Laboratory for Marine Science and Technology (QNLM) will undergo annual maintenance from 9 June 2022 to 13 June 2022. During this time, AMBP servers may be intermittently unavailable. We are sorry for the inconvenience. Please contact AMBP with concerns: AMBP_MGB@hotmail.com

    News and Updates

    Copyright ©

    2021 MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China

    5 Yushan Road, Qingdao 266003, Shandong Province, China

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    Tools

    SNP imputation and SV identification

    Online Imputation

    Genotype imputation leverages local linkage disequilibrium to infer missing genotypes of target samples. In AMBP, users can carry out online imputation for 18 aquaculture species by two imputation tools.

    SNP Search

    Users can search SNPs by genomic coordinates and check their predicted effects or functions.

    SV identification

    Users can upload custom datasets to scan and identify simple structural variation (SV) and complex genomic rearrangements (CGR) by using ‘Starfish’ algorithm.

    Population characterizing

    Genetic Structure

    Users can investigate the population structure of target samples with genotype datasets. Genetic clustering is performed by genetic ancestry estimation and principal component analysis.

    Kinship

    Users can infer pairwise relationships from estimated IBD segments and kinship coefficients.

    Genetic breeding

    GWAS

    Users can upload custom datasets and scan markers across the whole genomes to locate genetic variations associated with a particular trait.

    Genomic Selection

    Users can upload custom datasets for Genomic Estimated Breeding Values (GEBV) prediction. AMBP includes three GS models: Genomic Best Linear Unbiased Prediction (GBLUP), Bayesian Lasso, and Sparse Neural Networks (SNN).

    Genomic Mating and Simulation

    Genomic mating (GM) represents an approach to maximize genetic gain while constraining inbreeding within a targeted range. Users can compare the genetic improvements made by GS and GM across multiple simulated generations.

    Download

    Datasets

    You can download the reference panel and the genome assemblies of each species



    Help

    Help

    Tutorial

    Detailed tutorial for each module.

    Updates

    The latest news and updated development history.

    FAQs

    Frequently asked questions and answers.

    Contact

    Ways to contact us about problems,comments and suggestions.