Dr Dapeng Wang

Dr Dapeng Wang

Profile

I am currently working as a Senior Bioinformatics Research Officer in LeedsOmics at the University of Leeds. In brief, I received a bachelor degree in mathematics from Shandong University (Jul. 2006) and obtained a PhD degree in bioinformatics from Beijing Institute of Genomics of the Chinese Academy of Sciences (Jul. 2011). I continued to conduct research at the same institute after my graduation (2011-2014) and afterwards moved to the UK to work in Cancer Institute at University College London (Mar. 2014-Jan. 2016) and Department of Plant Sciences at University of Oxford (Feb. 2016-Jan. 2018).

I am a trained and experienced Bioinformatician and have spent over 10 years in the research projects of genomics and bioinformatics in the UK and China, possessing profound knowledge of genome biology and masters a rich set of bioinformatics skills in the processing of large-scale biological data. I am very familiar with the popular molecular quantification technologies including array and sequencing as well as the state-of-the-art toolkits where I have been developing a number of high-standard and advanced Next-Generation-Sequencing pipelines or workflows for exome-Seq, RNA-Seq, RAD-Seq, ChIP-Seq, single cell analysis, BS-Seq and Ribo-Seq. In addition, I have established a bunch of useful LAMP databases and webservers as a series of successful applications of computer techniques in contemporary computational biology studies, which integrate a huge number of genomes covering all major life forms in our planet and classified them in a well-characterized taxonomical system, leading to some of the solid foundations and innovative hypotheses for exploring genome architecture evolution from both two dimensional and three dimensional points of view.

Latest publications:

Wang D. GCevobase: an evolution-based database for GC content in eukaryotic genomes. Bioinformatics. 2018 Feb 6.
DOI:10.1093/bioinformatics/bty068

Wang D. hppRNA—a Snakemake-based handy parameter-free pipeline for RNA-Seq analysis of numerous samples. Briefings in Bioinformatics. bbw143-bbw143, 2017.
DOI:10.1093/bib/bbw143

Böiers C, Richardson SE, Laycock E, Zriwil A, Turati VA, Brown J, Wray JP, Wang D, James C, Herrero J, Sitnicka E, Karlsson S, Smith AJH, Jacobsen SEW, Enver T. A Human IPS Model Implicates Embryonic B-Myeloid Fate Restriction as Developmental Susceptibility to B Acute Lymphoblastic Leukemia-Associated ETV6-RUNX1. Developmental Cell. 2018 Feb 5;44(3):362-377.e7.
DOI:10.1016/j.devcel.2017.12.005

Research interests

Biological database construction

To use the standard LAMP framework to integrate and complie the publicly-available datasets from a variety of individual studies from the public repositories. 

Genome evolution

To investigate the remarkable differences between evolutional lineages or clades in terms of genomic properties or elements such as GC content, intronic sequences and repetitive sequences.

Omics pipeline develpment

To construct a series of high-quality and effient workflows for high-throughput experiements including exome-Seq, RNA-Seq, RAD-Seq, ChIP-Seq, single cell analysis, BS-Seq, Ribo-Seq, metabolomics, proteomics and array data.

Gene expression

To profile the gene expressions, identify the differential gene expression and probe the evolution patterns of gene expression in terms of plenty of species and conditions 

Variants in population level

To detect the whole set of variants at the nucleotide level such as SNP, InDel, copy number variation, duplication, inversion and translocation among the population genomic data.

 

Qualifications

  • BS, Mathematics, Shandong University, 2006
  • PhD, Bioinformatics, Beijing Institute of Genomics, Chinese Academy of Sciences, 2011

Research groups and institutes

  • Leeds Omics