ArticleNucleic acids research2024
SoyMD: a platform combining multi-omics data with various tools for soybean research and breeding.
Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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36 citing papers in PubMed, 50 citations in OpenAlex.
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- Pan-Genome Analysis Reveals Evolutionary Dynamics and Functional Divergence of thePlants (Basel, Switzerland) · 2026Article
- Comprehensive analysis of maBIOTECH · 2026Article
- Genome-Wide Identification and Salt Tolerance Analysis of theInternational journal of molecular sciences · 2026Article
- OrchidMD: An Integrated and User-Interactive Orchid Multi-Omics Database for Mining Genes and Biological Research.Plant biotechnology journal · 2026Article
- Lineage-specific expansion and functional diversification of mTERF proteins sculpt organellar regulation in plants.BMC plant biology · 2026Article
- Overexpression of soybean flavonoid 3'-hydroxylase enhances plant salt tolerance by promoting ascorbic acid biosynthesis.Journal of advanced research · 2026Article
- Genome-wide detection of superior haplotypes for seed oil and protein content in Northeast China soybean (Frontiers in plant science · 2026Article
- Genome-wide analysis and functional characterization of theFrontiers in plant science · 2026Article
- Epigenomics and Non-Coding RNAs in Soybean Adaptation to Abiotic Stresses.International journal of molecular sciences · 2025Review
- A natural allele ofProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Transcriptomic Profiling Unravels the Molecular Mechanisms ofPlants (Basel, Switzerland) · 2025Article
- A pair of GPI-anchored proteins regulate soybean immunity and disease resistance in coordination with GmLMM1 and GmRALFs.Plant biotechnology journal · 2025Article
- Epigenetic regulation modulates seasonal temperature-dependent growth of soybean in southern China.Plant biotechnology journal · 2025Article
- LGRPv2: A high-value platform for the advancement of Fabaceae genomics.Plant biotechnology journal · 2025Article
- Large-scale pairing identifies a soybean phytocytokine-receptor module conferring disease resistance.Nature plants · 2025Article
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
Abstract
Advanced multi-omics technologies offer much information that can uncover the regulatory mechanisms from genotype to phenotype. In soybean, numerous multi-omics databases have been published. Although they cover multiple omics, there are still limitations when it comes to the types and scales of omics datasets and analysis methods utilized. This study aims to address these limitations by collecting and integrating a comprehensive set of multi-omics datasets. This includes 38 genomes, transcriptomes from 435 tissue samples, 125 phenotypes from 6686 accessions, epigenome data involving histone modification, transcription factor binding, chromosomal accessibility and chromosomal interaction, as well as genetic variation data from 24 501 soybean accessions. Then, common analysis pipelines and statistical methods were applied to mine information from these multi-omics datasets, resulting in the successful establishment of a user-friendly multi-omics database called SoyMD (https://yanglab.hzau.edu.cn/SoyMD/#/). SoyMD provides researchers with efficient query options and analysis tools, allowing them to swiftly access relevant omics information and conduct comprehensive multi-omics data analyses. Another notable feature of SoyMD is its capability to facilitate the analysis of candidate genes, as demonstrated in the case study on seed oil content. This highlights the immense potential of SoyMD in soybean genetic breeding and functional genomics research.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.