Welcome to Ma Lab

We are group of people dedicated to Bioinformatics research and service provision.

What We Do

Within the fields of bioinformatics and systems biology, we seek to apply Big-Data technologies and methods to answer questions in plant biology, specifically in studies of crop genomics and genetics.

The main research interests include:

  • Artificial intelligence (AI) and Big-Data analysis,

  • Epitranscriptome: Bioinformatics approaches and regulation mechanisms,

  • Bioinformatics-based genotype-phenotype mapping,

  • Systems biology approaches-based plant stress research.

Recent Publications

Exploring transcriptional switches from pairwise, temporal, and population RNA-Seq data using deepTS

Transcriptional switch (TS) is a widely observed phenomenon caused by changes in the relative expression of transcripts from the same …

Evolution of the RNA N6-methyladenosine methylome mediated by genomic duplication

RNA N6-methyladenosine-modified genes exhibit biased subgenome fractionation, and their co-evolutionary relationship with transposable …

CAFU: a Galaxy framework for exploring unmapped RNA-Seq data

A widely used approach in transcriptome analysis is the alignment of short reads to a reference genome. However, owing to the …

miRLocator: A Python Implementation and Web Server for Predicting miRNAs from Pre-miRNA Sequences

microRNAs (miRNAs) are short, noncoding regulatory RNAs derived from hairpin precursors (pre-miRNAs). In synergy with experimental …

Hybrid sequencing reveals insight into heat sensing and signaling of bread wheat

Wheat (Triticum aestivum L.), a globally important crop, is challenged by increasing temperatures (heat stress, HS); however, its …

Projects

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deepTS

Exploring transcriptional switches from pairwise, temporal, and population RNA-Seq data using deepTS

CAFU

A bioinformatics framework for comprehensive assembly and functional annotation

DeepGS

Deep learning-based genomic selection

Epitranscriptome

Bioinformatics approaches for epitranscriptome analysis and their applications

PEA

Plant epitranscriptome analysis

PEA-m5C

Machine learning-based m5C prediction

RAP

Gene prioritization for a pre-specific function

G2P

Bioinformatics approaches for genotype-to-phenotype mapping and their applications

miRLocator

mature miRNAs predictions from pre-miRNA sequences

BigData

Artificial intelligence (AI)-based Big-data analysis approaches and their applications

mlDNA

Machine learning-based differential network analysis

RSGCC

Gini-based transcriptiome analysis

KGBassembler

Karyotype-based genome assembly for Brassicaceae species

Meet the Team

Professor, Doctoral Supervisor

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Chuang Ma

Professor, Doctoral Supervisor

Associate Professor

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Zhaoxue Han

Associate Professor

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Zhenyan Miao

Associate Professor

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Beilei Lei

Associate Professor

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Yunjia Tang

Lecturer

PhD Candidates

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Jingjign Zhai

PhD Candidate

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Siyuan Chen

PhD Candidate

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Yuhong Qi

PhD Candidate

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Zhixu Qiu

PhD Candidate

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Ting Zhang

PhD Candidate

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Wenlong Ma

PhD Candidate

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Qian Cheng

PhD Candidate

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Shafy

PhD Candidate

Master Candidates

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Shang Xie

Master Candidate

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Chengzhi Ren

Master Candidate

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Zelong Li

Master Candidate

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Xiaorong Zhang

Master Candidate

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Bin Xie

Master Candidate

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Lei Ling

Master Candidate

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Minggui Song

Master Candidate

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Pengkun Bao

Master Candidate

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Xiangcheng Sun

Master Candidate

Contact

  • The Ma Laboratory · School of Life Scieces, Northwest A&F University, Yangling, Shaanxi, 712100, China
  • Room NO.2216, State Key Laboratory of Crop Stress Biology for Arid Areas
  • Gmail
  • Google Scholar
  • Github