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

Dual-Extraction Modeling: A multimodal deep learning architecture for phenotypic prediction and functional gene mining of complex traits

Despite considerable advances in extracting crucial insights from bio-omics data to unravel the intricate mechanisms underlying complex …

IPOP: An Integrative Plant Multi-omics Platform for Cross-species Comparison and Evolutionary Study

The advent of high-throughput sequencing technologies has led to the production of a significant amount of omics data in plants, which …

Changes in m6A RNA methylation are associated with male sterility in wolfberry

N6-methyladenosine (m6A) modification is the most abundant type of RNA modification in eukaryotic cells, playing pivotal roles in …

easyMF: A Web Platform for Matrix Factorization-Based Gene Discovery from Large-scale Transcriptome Data

With the development of high-throughput experimental technologies, large-scale RNA sequencing (RNA-Seq) data have been and continue to …

Projects

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DEM

A multi-modal deep-learning architecture designed to extract representative features from heterogeneous omics datasets, enabling the …

IPOP

An Integrative Plant Multi-omics Platform for Cross-species Comparison and Evolutionary Study

GOVS

Genome optimization via virtual simulation to accelerate maize hybrid breeding

SMART

A Database for Small Molecules with Functional Implications in Plants

iwa-RNA

Interactive Web-based Annotation of Plant MicroRNAs with iwa-miRNA

deepEA

deepEA a containerized web server for interactive analysis of epitranscriptome sequencing data

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

Principal Investigator, Professor, Doctoral Supervisor

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Chuang Ma

Principal Investigator, Professor, Doctoral Supervisor

Professor, Doctoral Supervisor

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Zhenyan Miao

Professor, Doctoral Supervisor

Associate Professor

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Beilei Lei

Associate Professor

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Zhaoxue Han

Associate Professor

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Zenglin Li

Associate Professor

PhD Candidates

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Jing Yang

PhD Candidate

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Minggui Song

PhD Candidate

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Ting-rui Shi

PhD Candidate

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Yuhang Ma

PhD Candidate

Master Candidates

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Chenhua Wu

Master Candidate

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He Zhou

Master Candidate

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Haonan Zhao

Master Candidate

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Chenghui Liu

Master Candidate

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Dinglin Luo

Master Candidate

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Jinglin Li

Master Candidate

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Meihua Xu

Master Candidate

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Pengjun Ding

Master Candidate

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Runze Wei

Master Candidate

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Saiyang Ding

Master Candidate

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Sen Wang

Master Candidate

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Shuang Zhao

Master Candidate

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Wen Sun

Master Candidate

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Yali Yu

Master Candidate

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Yi Liu

Master Candidate

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Yifan Bu

Master Candidate

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Yishui Han

Master Candidate

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Yuxin Liu

Master Candidate

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Zhihao Zhang

Master Candidate

Contact

  • The Ma Laboratory · College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, 712100, China
  • Room NO.2216, State Key Laboratory for Crop Stress Resistance and High-Efficiency Production
  • Gmail
  • Google Scholar
  • Github