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Ragul Vijayakumar Nithya — Penn State

I model the systems
behind brains & signals.

Neural Engineering, Biomedical Imaging, and the Mathematics of Living Systems — I build models and train deep learning to make sense of physical and biological systems, and I apply it to neural engineering: turning complex physiology into something we can see, measure, and trust.

◦ Computational modelling ◦ Deep learning ◦ Neural engineering
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About

I'm Ragul — an Engineering Science student in the Schreyer Honors College at Penn State. At heart, I'm interested in computational modeling: I like taking a messy physical or biological system and finding the right mathematical and computational description of it. More and more, that work runs through deep learning — using neural networks to model behavior that's hard to write down by hand. Neural engineering is where I most love to apply all of it.

I'm also the creator of C.A.R.E., a roughly $50 real-time ECG device built on a simple idea: life-saving technology shouldn't be limited by cost. It reached the finals of the Nittany AI Challenge, but what matters most to me is that it might one day support care in under-resourced settings.

Outside the lab, I serve as Vice President of Penn State's Quantum Society, where we explore ideas that stretch intuition. Alongside, I spend a good amount of time teaching mathematics, too, which keeps me honest about explaining hard things simply.

What guides me

To me, innovation isn't a buzzword — it's a responsibility. Good healthcare shouldn't be a privilege; it should be something we can all count on.

Education

Bachelor of Science in Engineering Science — Neural Engineering Concentration

Schreyer Honors College, The Pennsylvania State University · Expected Spring 2028

Engineering Science is a deliberately broad foundation — physics, biology, mathematics, and computation studied closely enough to work across them. The neural engineering concentration lets me point that foundation at the brain and the body.

Schreyer Honors Scholar & Dean's List, all semesters

Relevant Coursework: Physiological Systems · Molecular & Cellular Biology · Neurobiology · Differential Equations · Linear Algebra · Calculus I, II & III · Computational Methods · C++ · Circuits & Devices · Wave/Particle Physics · Thermodynamics and Modelling of Systems

Degree Progress

50% Completed

Semester 1 Courses

  • Calculus I
  • Physics I
  • Engineering Seminar
  • Rhetoric and Composition

Semester 2 Courses

  • Physics II
  • C++ & Matlab
  • Calculus II
  • Chemistry I
  • Macro Economics

Semester 3 Courses

  • Linear Algebra
  • Wave & Quantum Physics
  • CHEM-I Lab
  • Calculus III
  • Engineering Design
  • Biochemistry - Cell

Semester 4

  • Analysis of Physiological Systems
  • Differential Equation
  • Thermodynamics Modeling (Honors)
  • Statics
  • Calculus III

Semester 5

  • Dynamics
  • Eng. Application of Wave Particles
  • Circuits and Devices
  • Computer Methods in Eng.
  • Research Lab Exp.
  • Neurobiology

Skills & Tools

Mostly computational modelling and deep learning — with the signal, imaging, and systems background that lets me point them at real problems.

Computational Modelling & Simulation

  • Mathematical modelling
  • Physiological systems modelling
  • Wave propagation
  • Inverse problems
  • Simulink
  • Schrödinger Maestro

Deep Learning & Machine Learning

  • PyTorch
  • Neural networks
  • Physics-informed neural networks
  • CNNs
  • Model training & evaluation
  • Data pipelines

Programming & Scientific Computing

  • Python
  • NumPy
  • SciPy
  • Pandas
  • MATLAB
  • C++
  • Linux
  • HPC Cluster Computing
  • Bash
  • SLURM

Signal & Image Processing

  • Fourier analysis
  • FFT / DFT
  • Digital filtering
  • Convolution & correlation
  • Transfer functions
  • ECG & ultrasound analysis

Experience

Research, teaching, and the work in between. Select a card to read more.

Undergraduate Researcher

BioPhotonics & Ultrasound Imaging Laboratory, Penn State · Feb 2025 – Present
Research
  • Advised by Dr. Sri-Rajasekhar Kothapalli, studying how the skull distorts functional ultrasound (fUS) imaging of the brain.
  • Working on physics-informed neural networks to improve the imaging quality.
  • My other focuses includes: signal processing, spatio-temporal model rendering, and image-based inference for clinical integration.

Undergraduate Student Researcher

NSF NCEMS, Penn State · Mar 2026 – Present
Research
  • Working at the intersection of reproducibility and computational biology.
  • Validating mass-spectrometry processing pipelines against published bottom-up proteomics studies — essentially testing how much we can trust high-throughput protein quantification.
  • Hands-on with SILAC labeling analysis, peptide-to-protein inference, batch correction, and comparative quantification metrics.
  • Advised by Dr. Ian Sitarik and Dr. Alexis Morrissey.

Student Researcher (NRRE)

NSF NCEMS, Penn State · Sep 2025 – Mar 2026
Research
  • Applied graph genome assemblies to bacterial genomics, where single linear references struggle to capture the diversity and rapid evolution of bacterial species.
  • Built graph genomes from representative strains using ODGI and vg, then compared alignment against linear references.
  • Found clear reference bias in linear alignment and improved biological representation with graph genomes.
  • Aimed to show that graph genomes are useful well beyond model organisms like E. coli.

Vice President & Treasurer

Quantum Student Society at Penn State · Apr 2025 – Present
Leadership
  • Help plan and run the society alongside the President, and manage its finances as Treasurer.
  • Coordinate interdisciplinary seminars and workshops across quantum computing, physics, and engineering.
  • Build partnerships with faculty and student groups to make the events and space genuinely cross-disciplinary and welcoming.

Mathematics Grader

Eberly College of Science · Aug 2025 – May 2026
Teaching
  • Grade homework, quizzes, and assignments with consistency and care.
  • Return timely feedback so students can keep pace with the course.
  • Follow faculty guidelines to keep grading fair and dependable.

Mathematics Learning Assistant

Eberly College of Science, Penn State · Jan 2025 – May 2026
Teaching
  • Work with students and faculty to make math click — small-group activities and evening problem-solving sessions.
  • Part of Eberly College's Learning Assistant initiative, which puts undergraduates into the classroom as near-peer guides.
  • Easily the part of my week that taught me the most about explaining hard things simply.

Risk Management Proctor

Smeal College of Business, Penn State · Aug 2025 – Dec 2025
Operations
  • Oversaw and monitored examinations to ensure academic integrity at Penn State University.
  • Maintained a secure testing environment, ensuring adherence to exam rules and regulations.
∞
more to come

Affiliations

Organization 1 Organization 4 Organization 2 Organization 7 Organization 1 Organization 4 Organization 2 Organization 7

Projects

C.A.R.E. — Compact, Affordable, Real-time ECG

Nittany AI Challenge · 2025 · Finalist

A roughly $50 real-time ECG platform built on a simple conviction: life-saving monitoring shouldn't depend on the size of a hospital's budget. Designed with under-resourced settings in mind.

  • Acquisition front-end built on the AD8232 analog stage and an Adafruit Metro (ATmega328p) microcontroller.
  • Sampling pipeline running at ~500 Hz with 10-bit ADC resolution.
  • Signal-conditioning chain with ~100× gain and a 0.5–40 Hz bandpass to isolate the cardiac signal.

View repository

Graph vs. Linear Genomes for Bacterial Analysis

NRRE Program · NSF NCEMS · 2025–2026

A comparison of graph and linear reference genomes for aligning bacterial sequencing data, motivated by how poorly a single reference captures bacterial diversity.

  • Aligned 6.9M Illumina reads (SRA: SRR10480733) with vg giraffe against both graph and linear references.
  • Showed reference bias in linear alignment — 92.64% vs 87.08% mapping rate — with graph genomes giving a more faithful biological picture.
  • Analyzed strain-level read distribution, finding dominant similarity to non-reference strains (17.2% vs 3.5% to the reference).

Certifications

Yale Logo

Diagnostic Imaging

Yale University · Jul 2025

Credential ID: FFA76HP0K8Y6

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Neuroscience for Neuroimaging

Johns Hopkins · May 2025

Credential ID: E1Q7U9GWQOIY

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Computational Neuroscience

University of Washington · Apr 2025

Credential ID: LZRIENMASKVP

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Medical Neuroscience

Duke University · July 2025

Credential ID: 4A1LK4JW4993

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Researchers (NOT involved in survival surgery)

CITI · Oct 2025

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CITI Logo

Researchers (Personnel listed on IACUC Protocols)

CITI · Oct 2025

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Recognition

People's Choice Award

Capstone Project Showcase, Fall 2025 — voted by attendees for our EDSGN 100 team project.

Nittany AI Challenge Finalist

2025 — reached the finals with C.A.R.E., among 100+ competing teams.

Dean's List

Every semester to date — Fall 2024, Spring 2025, Fall 2025, Spring 2026.

State Best Child Award — Innovative Science

Jawahar Bal Bhavan — for early work in science and innovation.

Beyond Research

Languages

As a dedicated student of the warrior's tongue, I am honored to be a member of the Klingon Language Institute. I am passionate about learning and preserving "tlhIngan Hol" (the Klingon language). Qapla'!

Teaching & mentoring

Some of my favorite hours are spent at a whiteboard with a student who's one explanation away from getting it. Teaching keeps my own understanding honest.

Coffee & quiet curiosity

I do my best thinking in cafés — from the ones around State College to the small places back home in Karaikal — usually with a notebook and one too many questions.

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Get in touch

I'm always glad to talk about research, collaborations, or an idea worth chasing. The fastest way to reach me is email.

Email LinkedIn ORCiD GitHub

© 2026 Ragul Vijayakumar Nithya