Building Pan-Genomes based on Sequence Homology

This project focuses on the construction of pan-genomes using the concept of sequence homology. A pan-genome is a collection of all the genes present in a group of related organisms, capturing the core genes shared by all members as well as the accessory genes unique to specific individuals. By leveraging sequence homology, which refers to the similarity of DNA or protein sequences, we can identify and analyze the genomic variations within a species or a group of related species.

The main objectives of this project are:

Data Retrieval: Obtain genomic sequences of multiple organisms or strains belonging to the same species or closely related species.

Sequence Alignment: Perform multiple sequence alignment (MSA) to identify conserved regions across the genomes.

Pan-Genome Construction: Utilize the MSA results to construct the pan-genome by identifying the core genes shared by all genomes and the accessory genes specific to individual genomes.

Annotation and Analysis: Annotate the genes in the pan-genome to gain insights into their functions and analyze the distribution of genes across different strains or species.

Visualization: Visualize the pan-genome structure and gene distribution patterns using suitable graphical representations.

This project aims to provide a comprehensive and flexible tool for researchers working in the field of comparative genomics. By building pan-genomes based on sequence homology, we can gain a deeper understanding of the genetic diversity within a species, uncover unique genomic features, and explore the evolutionary relationships between different strains or species.