Bioinformatic TOOLS for Functional Annotation

Bioinformatic TOOLS for Functional Annotation

Index

07. Functional Annotation

04. Quality Control

01. Introduction

05. Data Processing

08. Key Features

02. RNA sequencing

09. Conclusions

03. Nano pore

06. Taxonomic Classification

01

Introduction

• Genetic research
• Medical diagnostics
• Drug development
• Environmental research

RNA Sequencing

• RNA sequencing, also known as RNA-seq, is a technique used to study gene expression at the transcriptome level.

• The RNA-seq workflow typically involves several steps.

1. Extract and check quality/quantity of RNA.
2. Convert RNA to cDNA, add sequencing adapters.

• RNA-seq has many applications in biology, including gene expression analysis, functional genomics, and transcriptome annotation.

Nanopore Sequencing

• Nanopore Sequencing utilizes nanopores to directly read the sequences of DNA/RNA as they pass through it.
• The electrical current passes through the nanopore.
• Nanopore sequencing has several advantages:

1. Long reads capabilities
2. Allowing real-time sequencing of single molecules.

Quality Control

• Quality control is an important step in the processing and analysis of high-throughput sequencing data.
• To ensure the quality of 16S rRNA gene sequencing data, several steps are taken.

1. low-quality bases are removed from the data
2. filtering out chimeric sequences

Data Pre-processing

• FASTA format is a text-based format used for representing nucleotide or amino acid sequences in bioinformatics.

• Data given to us was sequences in FASTQ format that needs to be converted to FASTA format
• FASTQ contains both the nucleotide sequence and the corresponding quality scores for each base in the sequence.

Taxonomic Classification

Taxonomic classification of 16S rRNA sequences is the process of assigning a taxonomic identity to a particular sequence based on its similarity to known sequences in a reference database.

Functional Annotation

• Functional annotation of 16S rRNA sequences refers to the process of assigning functional information to bacterial or archaeal taxa based on their taxonomic classification using the 16S rRNA gene sequence.
• Here are some basic steps involved in functional annotation:

1. Sequence Analysis
2. Homology Search
3. Literature Mining

Future Objectives

• We have decided to continue this project further by making a website and deploying live all the necessary steps and solutions to the problems and errors faced by us.
• Also try to make a backend for the same, where a user can directly provide the sequencing files to our model and, it will give him the required output classification file.

Thank youfor your attention

Any question?