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<h1 class="text-4xl md:text-6xl font-bold text-white leading-tight">Rakesh Kumar A</h1>
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<p class="text-xl md:text-2xl mt-4 text-[#8892b0]">Bioinformatics Professional</p>
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<p class="mt-4 text-lg text-[#8892b0]">
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A dedicated Bioinformatics professional with a Master's degree, specializing in automated pipelines for NGS-based pathogen detection and reproducible workflows.
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A passionate and detail-oriented M.Sc. Bioinformatics postgraduate with strong expertise in computational biology, AI/ML integration in life sciences, and high-throughput bioinformatics workflows. My work is driven by a commitment to leveraging computational tools to solve complex biological problems, particularly in the areas of Next-Generation Sequencing (NGS) analysis, metagenomics, pathogen detection, and biomarker discovery.
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</p>
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<a href="projects.html" class="cta-button inline-block mt-8 px-8 py-3 rounded-md font-semibold text-lg">
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Explore My Work
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<h2 class="text-3xl font-bold text-center text-white mb-12">About Me</h2>
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<div class="section-card max-w-4xl mx-auto p-8 rounded-lg">
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<p class="text-lg mb-4 text-[#ccd6f6]">
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With a Master's in Bioinformatics, I am passionate about applying computational solutions to biological challenges. My expertise includes biostatistics, version control with Git, and strong analytical thinking. I thrive in collaborative research environments and have a keen interest in leveraging AI/ML to drive scientific discovery.
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Over the course of my academic and professional journey, I have developed a strong command over regulatory genomics, transcription factor binding site (TFBS) analysis, machine learning for omics data, and automated bioinformatics pipelines. My approach blends rigorous biological insight with advanced computational methods, enabling me to transform raw biological data into actionable knowledge.
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</p>
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<div class="mt-6">
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<h3 class="text-xl font-semibold text-white mb-3">Languages</h3>
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<div class="section-card max-w-4xl mx-auto p-8 rounded-lg">
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<div class="space-y-6">
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<a href="projects.html" class="block p-4 rounded-lg hover:bg-cyan-900/30 transition-colors duration-300">
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<h3 class="text-xl font-semibold text-cyan-300">AI/ML Analysis of TCGA - LUSC | Lung Cancer Gene Expression Dataset</h3>
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<p class="text-[#8892b0] mt-1">Utilized machine learning models to analyze gene expression data for lung cancer research.</p>
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<h3 class="text-xl font-semibold text-cyan-300">AI/ML Analysis of TCGA-LUSC Gene Expression Dataset</h3>
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<p class="text-[#8892b0] mt-1">Applied machine learning models (Logistic Regression, KNN, Random Forest, XGBoost) to classify lung cancer samples from TCGA, achieving exceptional accuracy after a rigorous preprocessing pipeline including PCA.</p>
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</a>
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<a href="projects.html" class="block p-4 rounded-lg hover:bg-cyan-900/30 transition-colors duration-300">
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<h3 class="text-xl font-semibold text-cyan-300">In Silico Design of a Multi-Epitope Vaccine for Group A Streptococcus (GAS)</h3>
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<p class="text-[#8892b0] mt-1">Designed a novel vaccine candidate using computational immunology and vaccine design principles.</p>
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<p class="text-[#8892b0] mt-1">Leveraged immunoinformatics and molecular simulation to design and validate a chimeric vaccine candidate, which demonstrated high antigenicity, structural stability, and strong binding to key immune receptors.</p>
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</a>
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<a href="projects.html" class="block p-4 rounded-lg hover:bg-cyan-900/30 transition-colors duration-300">
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<h3 class="text-xl font-semibold text-cyan-300">Next-Generation-Sequencing-Based-Pipeline-for-Rapid-Pathogen-Detection</h3>
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<p class="text-[#8892b0] mt-1">Developed an automated pipeline for fast and accurate identification of pathogens from NGS data.</p>
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<h3 class="text-xl font-semibold text-cyan-300">NGS-Based Pipeline for Rapid Pathogen Detection</h3>
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<p class="text-[#8892b0] mt-1">Developed a fully automated Snakemake pipeline for high-throughput metagenomics analysis, integrating tools like Kraken2 and Krona for efficient pathogen identification from raw FASTQ files to interactive visualizations.</p>
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</a>
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</div>
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<h3 class="flex items-center mb-1 text-xl font-semibold text-white">Bioinformatics Intern</h3>
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<time class="block mb-2 text-sm font-normal leading-none text-[#8892b0]">Shodhaka Life Sciences Pvt. Ltd., Bangalore | Dec 2024 - Jun 2025</time>
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<ul class="list-disc list-inside mt-2 text-[#ccd6f6] space-y-1">
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<li>Evaluated Transcription Factor Binding Site (TFBS) resources to advance gene regulation research.</li>
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<li>Performed motif enrichment analysis using MEME Suite and RSAT.</li>
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<li>Developed proficiency in Python and R for data analysis and scripting.</li>
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<li>Evaluated and compared web-based Transcription Factor Binding Site (TFBS) resources to advance gene regulation research.</li>
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<li>Performed motif enrichment analysis and scanning on large gene sets using MEME Suite and RSAT.</li>
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<li>Developed proficiency in Python and R for data analysis, scripting, and cross-validating computational predictions.</li>
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</ul>
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</a>
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<a href="internships.html" class="block ml-8 p-4 rounded-lg hover:bg-cyan-900/30 transition-colors duration-300">
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<h3 class="flex items-center mb-1 text-xl font-semibold text-white">Bioinformatics Intern</h3>
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<time class="block mb-2 text-sm font-normal leading-none text-[#8892b0]">Biokart India Pvt.Ltd, India | Sep 2024 - Nov 2024</time>
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<ul class="list-disc list-inside mt-2 text-[#ccd6f6] space-y-1">
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<li>Gained hands-on experience in NGS workflows, including quality control (FastQC) and trimming (TrimGalore).</li>
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<li>Processed Whole-Genome (WGS) and Whole-Metagenome (WMS) sequencing data.</li>
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<li>Contributed to the generation of genomic and metagenomic reports.</li>
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<li>Gained hands-on experience in complete NGS workflows, from quality control (FastQC) to de novo genome/transcriptome assembly (Velvet, Trinity).</li>
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<li>Processed Whole-Genome (WGS) and Whole-Metagenome (WMS) sequencing data, including trimming and host read removal.</li>
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<li>Utilized SAMtools and Minimap2 for alignment processing and validation.</li>
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</ul>
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</a>
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