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Songtao Gui, Ph.D.

  • Researcher in population genetics, pan-genomics and graph genome;

  • Trying to solve the \( V_{Geno} \sim V_{Pheno} \) problem using multi-omics evidences;

  • Developing tools and databases related to omics-analyses;

Contacts

songtaogui@sina.com Blog GitHub Twitter ORCID GoogleScholar

Skills

  • Programming Languages: Bash; Perl; R; Julia; Python(Read&Edit); Rust(Trying);

  • Systems: Linux(Debian, Ubuntu, Red Hat); Windows; HPC cluster(CentOS7-based)

  • Bioinformatics:

    • State-of-art NGS/omics-seq analyses: DNA/RNA-seq(Illumina, PB-SMRT/RSII, ONT), ChIP/HiC/WGS/ATAC etc.

    • Downstream analyses: Population Genetics, Phylogenetics, Genomics, Epigenetics etc.

    • Visualisation: R/ggplot-x, Julia/Makie, AdobeIllustrator, Photoshop etc.

    • DIY pipelines when necessary: Pan-genomic, SV calling, GWAS and post-GWAS etc.

    • Web development: more a designer than a developer, dealing with data more than code

  • Biological:

    • Evolutionary > Functional: tends to understand questions through large data supports

    • Theoretical > Practical: embracing cooperations for making bioinfo-data practical

Research/Work Experience

 
 
 
 
 

PostDoc

Huazhong Agricultural University; Supervisor: Prof. Jianbing Yan

Jan 2018 – Dec 2022 Wuhan
Responsibilities include:

  • Study the pan-genomics of Zea

  • Study the genomics and genetic variations in Zea

  • Construct and maintain the Zea multi-omics database Zeamap

 
 
 
 
 

Developer(concurrent post)

BGI Genomics

Dec 2018 – Dec 2019 Shenzhen
Cooperate with/Lead a group of 5 members to develop the Zeamap database.
 
 
 
 
 

PhD candidate

Wuhan University; Mentor: Prof. Yi Ding

Sep 2012 – Dec 2017 Wuhan
Responsibilities include:

  • Construct the genetic linkage map of Nelumbo nucifera

  • Study the genome of Nelumbo nucifera and comparative genomics among eudicots

  • Study the organelle genomes of Nelumbo nucifera

  • Study the CenH3 and centromere of Nelumbo nucifera

  • Identify DNA fingerprints for Rice germplasms

Interests & Education

Interests

  • Population genetics
  • Graph genomics
  • Cool codes in julia
  • Ping-Pong
  • Cat

Education

  • PostDoc in Crop Breeding, 2018-Now

    Huazhong Agricultural University

  • PhD in Genetics, 2012-2017

    Wuhan University

  • BSc in Biological Science, 2008-2012

    Shandong Normal University

Foundings/Achievements

  • 2021-2023, National Natural Science Foundation of China, 32000396; Founding (240,000RMB)

  • 2022, Hubei Postdoctoral Innovation and Entrepreneurship Competition, Winner's Price

  • 2020, 1st National Crop Science Postdoctoral Academic Forum, Outstanding Award;

  • 2019-2021, College of Plant Science, HZAU, Outstanding Postdoctoral funding;

  • 2017, 7th Hubei Congress of Plant Biology, 1st reporter award;

  • 2016, 2016 National Congress of Plant Biology, 3rd poster award;

  • 2016, National Scholarship for PhD. students;

Bibliography

#: Co-first authors; *: Correspondence

Refer to Achievements for more.