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Biopython

🧬 Bioinformatics Projects with Biopython

Welcome to my bioinformatics project repository! This collection showcases how I combine data science skills with my microbiology expertise to tackle biological sequence analysis and phylogenetic studies using Biopython, a powerful library for computational biology.

🧪 Sequence Analysis and Phylogenetics

🌊 16S rRNA Analysis of Vibrio Isolates from Shrimp Pond, Indramayu, Indonesia

  • Description: Conducted bacterial identification and phylogenetic tree analysis of Vibrio isolates from shrimp ponds.
  • Key Methods: BLAST for sequence identification, Biopython, Bio.Phylo module, sequence alignment, pathogenicity studies.

🌱 Soil Bacteria DNA Analysis in Ranca Upas, West Java, Indonesia

  • Description: Analyzed 16S rRNA gene sequences from soil bacterial isolates.
  • Key Methods: BLAST for sequence identification, Biopython for sequence processing.

🧬 In Silico Studies Using NCBI GenBank

🐟 Phylogenetic Analysis of Fish Species in Batanghari River

  • Description: Constructed a phylogenetic tree for fish species using COI sequences from NCBI GenBank.
  • Key Methods: Sequence alignment, tree construction with Biopython Library and FastTree Module, evolutionary analysis.

🤖🧬 Bioinformatics, Computational Biologist, and Machine Learning

🧬 Acute Leukimia Prediction

  • Description: Constructed a prediction model based on gene expression data (DNA microarray) to discriminate whether patient's acute leukimia case is considered as AML (Acute Myeloid Leukimia) or ALL (Acute Lymphoblastic Leukimia)
  • Key Methods: Principle Component Analysis (PCA), Machine Learning (Binary Classification), Random Forest.

💡 Why Biopython?

Biopython is an open-source library for computational biology and bioinformatics. It simplifies tasks such as sequence analysis, alignment, and phylogenetic tree construction, making it an indispensable tool for bioinformaticians and researchers.

⚡ Fun Fact

Biopython helped me bridge my background in wet lab microbiology and fish biology with computational tools, unlocking new insights into biological data.

🚀 Get in Touch!

If you're interested in collaborating on bioinformatics projects or discussing ideas, feel free to connect with me: