SREE VISHMAYA

Bioinformatician | NGS Specialist | Trainer & Consultant

Thanjavur, India.

PROFESSIONAL SUMMARY

Accomplished Bioinformatician with expertise in genomic data analysis and nextgeneration sequencing (NGS). Proficient in computational biology, statistical analysis and machine learning, with a strong focus on large-scale omics data interpretation. Adept at developing bioinformatics pipelines, optimizing workflows, and extracting meaningful biological insights to advance research and clinical applications. Also, a dedicated trainer and consultant, providing expert guidance on NGS workflows, data analysis techniques, and bioinformatics tools. Currently leading bioinformatics consulting and operations, driving strategic planning, process optimization, and innovation in bioinformatics & IT solutions. Passionate about advancing genomics, precision medicine and biotechnology through cutting-edge computational methodologies, research, and training.

PROFESSIONAL SKILLS

• Bioinformatics & Genomics:
• NGS Data Analysis: DNA-seq, RNA-seq, ChIP-seq, ATAC-seq, Exome-seq, Metagenomics
• Variant Analysis: SNP/INDEL calling, Structural Variants, CNV analysis, Annotation (ANNOVAR, VEP)
• Transcriptomics: Differential gene expression (DGE), isoform quantification, transcript assembly
• Functional Genomics: Gene Ontology, pathway enrichment analysis, etc.
• Computational Tools & Pipelines:
• Workflow Automation: Nextflow, Galaxy, Docker
• Bioinformatics Tools: FastQC, Trimmomatic, HISAT2, STAR, BWA, GATK, SAMtools, BEDTools, etc.
• Programming & Data Science:
• Languages: Python, R, Bash
• Data Visualization
• Machine Learning & Statistics
• Data Engineering & High-Performance Computing:
• HPC Systems: SLURM, parallel computing, job scheduling, resource management
• Project Management & Leadership:
• Team Leadership: Managing cross-functional bioinformatics teams
• Consulting & Training: Curriculum design, bioinformatics workshops, technical mentoring
• Scientific Writing: Grant proposals, technical reports, research publications

PROFESSIONAL EXPERIENCE

Bioinformatics & NGS Trainer | NextZen Academy (Oct 2024 – Present)
– Conducted bioinformatics and NGS training, equipping students with practical skills and knowledge.
– Developed course materials, including lectures and hands-on exercises, for effective learning.
– Mentored students, fostering a collaborative environment and preparing them for careers in bioinformatics.

Head of Operations | Total Outsource Management (Sep 2024 – Present)
– Spearheaded operational strategies to streamline business processes, improve efficiency, and drive sustainable growth in a fast-paced IT startup environment.
– Led cross-functional teams to implement innovative solutions, resulting in a significant increase in project delivery speed and client satisfaction.
– Oversaw resource management, budgeting, and performance tracking, ensuring optimal alignment of operational activities with company goals and objectives.

Bioinformatics Consultant | Freelancing (Jan 2023 – Present)
– Providing expert guidance and tailored solutions in bioinformatics to researchers and organizations in the life sciences industry.
– Assisting in the design and implementation of bioinformatics workflows, ensuring data-driven insights for research and development.
– Support clients in genomic data analysis, interpretation and integration to advance precision medicine and scientific discoveries.

Project Associate | Centre for Brain Research, IISc (Aug 2021 – Oct 2022)
– Standardized the WGS data analysis pipeline and analyzed 7,500 samples from across India.
– Managed data and provided reports to the Indian Government to assist in identifying Variants of Concern/Interest and support public health efforts.

EDUCATION

[hidden] in Bioinformatics | SASTRA Deemed University, Thanjavur | 2021
Project: “Machine Learning derived multiclass integrated prognostic scoring model for Acute Leukemia”

RESEARCH EXPERIENCES

Research Intern | National Institute of Pathology- ICMR, New Delhi (Jan-Jun 2021)
– Developed a machine learning-based prognostic scoring model for Acute Leukemia (AML & ALL) using Indian datasets under Dr. Aroonima Misra.

Student Researcher | SASTRA Deemed University, Thanjavur, Tamil Nadu (Jun 2019-Dec 2020)
– Explored tissue-level modular domain assembly of SWI/SNF complexes across different tissue types under Dr. Suma Mohan.

Trainee (CSIR-SRTP 2020) | CSIR – NEIST, Jorhat (Jun-Sep 2020)
– Built a prognostic model for AML using the publicly available TCGA dataset under Dr. Aroonima Misra.

PUBLICATIONS

1. Early Prognosis Prediction in Acute Myeloid and Acute Lymphoid Leukemia patients by Cell-free DNA (cfDNA) Concentration Ratios
2. Analysis of TCGA data for prognosis and risk categorization and survival using bioinformatics

Yet to Submit:
1. Integrated analysis of gene expression data reveals dysregulating factors of SWI/SNF in acute myeloid leukemia
2. Machine Learning derived multiclass integrated prognostic scoring model for Acute Leukemia

In Acknowledgement:
1. Concurrent outcomes from multiple approaches of epistasis analysis for human body mass index associated loci provide insights into obesity biology

SCIENTIFIC PRESENTATIONS & LECTURES

Poster Presentation: “Exploring the tissue level modular assembly of SWI/SNF complex” International Conference on Synergy of Sciences (ICSS-2020), SASTRA Deemed University, February 27-29, 2020.

Abstract Submission: “Exploring the modular domain assembly of SWI/SNF subunit genes in Acute Myeloid Leukemia” Second Women in Bioinformatics and Data Science LA Conference (virtual), September 22-24, 2021.

Paper Presentation: “The unique evolutionary dynamics of the SARS-CoV-2 Delta Variant” Journal Club (JC), Centre for Brain Research (CBR), February 14, 2022.

CERTIFICATIONS

• Introduction to R Software – 8-week NPTEL Online Certificate course, IIT Kanpur, Aug-Oct 2019.
• Microbiology Certificate Course – 2-week course, SASTRA Deemed University, during IV Semester, 2019.
• Principles, Statistical and Computational Tools for Reproducible Data Science – HarvardX course, Harvard University, May-June 2020.
• Emerging Respiratory Viruses, including COVID-19 – WHO Online course, June 6, 2020.
• Machine Learning A-Z: Hands-On Python & R in Data Science – Udemy Online Certificate course, June-July 2020.
• Leading Change in Health Informatics – Coursera Online Certificate course, Johns Hopkins University, July-August 2020.
• Next Generation Sequencing (NGS) for Influenza and SARS-CoV-2 – WHO Online course, December 10, 2023.
• Train the Trainer: Design Genomics and Bioinformatics’- Wellcome Connecting Science certified course, February 2024.
• Leadership & HR Foundations: Core HR & Leadership styles – LinkedIn certified course, February 2024.

CONFERENCES & WORKSHOPS

• SAMHITHA’18 – National Level Biotechnology Symposium, Department of Biotechnology, SASTRA Deemed-to-be University, February 17-18, 2018.
• GENOMED 2k19 – National Level Seminar on Medical Genetics, Department of Bioengineering, SASTRA Deemed-to-be University, February 2, 2019.
• PRATYARTH’19 – National Level Symposium on Machine Learning Approaches in Bioinformatics, SASTRA Deemed University, March 16, 2019.

MEMBERSHIPS

• AMBASSADOR: Nextflow Ambassador Program 2025.
• MEMBER: SGAC – Space Generation Advisory Council, AWIS – Association for Women in Science, IAENG – International Association of Engineers, ERGA – European Reference Genome Atlas, NASA-Gene Lab, ISCB – RSG India.
• ORGANIZER: ICSS-2020, SASTRA Deemed-to-be University.

PROFESSIONAL SKILLS

Bioinformatics, Genomics, NGS Data Analysis, Variant Analysis, Transcriptomics, Functional Genomics, Computational Tools, Data Visualization, Machine Learning, Statistics, Data Engineering, High-Performance Computing, Project Management, Leadership, Consulting, Training, Scientific Writing.

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Cover Letter:

I am an experienced bioinformatician with more than three years of expertise in NGS and genomics data analysis. My career is driven by a deep passion for unraveling the complexities encoded within genetic data. I specialize in transforming raw sequencing data into meaningful biological insights, contributing to high-impact research across diverse areas such as cancer genomics, population genetics, viral genomics, and genetic disorders.

I have developed a strong proficiency in processing large-scale genomic datasets from various sequencing platforms performing comprehensive variant calling, mutation analysis, and gene expression profiling. Through advanced computational techniques, I have contributed to identifying genetic variations crucial for understanding disease mechanisms and advancing precision medicine.

Throughout my career, I have consistently demonstrated my ability to leverage bioinformatics tools and machine learning techniques to unlock insights from complex datasets.

In addition to my technical expertise, I have honed my communication and leadership skills. I’ve successfully presented complex research findings at various scientific forums and actively contributed to the publication of research papers.

As a trainer and consultant, I have mentored aspiring bioinformaticians and collaborated across domains, reinforcing my understanding while fostering collaborative environments.

As I seek the next step in my career, I am eager to apply my skills to a challenging role in academia, industry, or healthcare. My goal is to contribute to the advancement of genomic research, precision medicine, and data-driven healthcare solutions, making a meaningful impact in transforming the future of biotechnology.