by Swaraj Thorat | Feb 3, 2025 | NGS
Abstract Hypoxia, a condition of reduced oxygen, drives significant changes in prostate cancer progression. This study analyzes the impact of hypoxia on gene expression in two prostate cancer cell lines, LNCaP (androgen-sensitive) and PC3 (androgen-independent), using...
by Swaraj Thorat | Oct 28, 2024 | Rshiny, Blog
Introduction As a student in bioinformatics, I am constantly dealing with data from single-cell RNA sequencing (scRNAseq). Analyzing these large datasets can be challenging, especially when it comes to visualizing and exploring clusters within the data. So, for one of...
by Swaraj Thorat | Oct 27, 2024 | Genomics, Bioinformatics Analysis, Blog
In this project, I explore differential gene expression and pathway enrichment in two prostate cancer cell lines—LNCaP and PC3—under different oxygen conditions: hypoxia (low oxygen) and normoxia (normal oxygen). Hypoxia is a common feature of tumor environments and...
by Swaraj Thorat | Sep 22, 2024 | Genomics, Advance Programming, Algorithm, Blog
Genome assembly is a key concept in bioinformatics, and it involves reconstructing a long DNA sequence from short, overlapping fragments known as reads. The purpose of this article is to explain how we can use De Bruijn graphs and Eulerian paths to solve genome...
by Swaraj Thorat | Sep 21, 2024 | Blog, Bioinformatics Analysis
A Step-by-Step Guide to RNA-seq Data Processing: From Data Download to Raw Counts In this article, I will walk you through the process of analyzing RNA-seq data, starting from downloading the raw data to obtaining gene expression counts. This is an essential workflow...
