
Aly Dhedhi
@alydhedhi
I build machine learning and computational biology systems for clinical AI, genomics, and drug-resistance discovery.
What I'm looking for
I'm developing an interpretable VQ-VAE for single-cell RNA-seq batch correction at Tsinghua University, evaluating it across 161,000-cell and million-cell cohorts for biological conservation and out-of-distribution robustness.
In the Kellis Lab, I built an XGBoost pipeline that forecasts unobserved drug-resistant M. tuberculosis mutations with 0.971 AUROC, integrating homoplasy, AlphaFold structural features, and drug-pocket coordinates across 44,016 variants.
At MIT CSAIL, I ship full-stack features for a 3D high-dimensional data platform using Django, Three.js, WebSockets, and Celery. I've delivered 26 merged PRs and 400+ commits, including a 2.5D map engine, semantic search, dataset-ingestion infrastructure, and security improvements.
I've also co-authored clinical AI failure-analysis research and led computational peptide design for BBB-penetrant EGFRvIII targeting. I bring scientific writing, reproducible pipelines, and a practical interest in using AI to advance biomedical research and patient care.
Experience
Work history, roles, and key accomplishments
Single-Cell Researcher
Tsinghua University
Aug 2026 - Present (2 months)
Developed an interpretable VQ-VAE for single-cell RNA-seq batch correction, matching scVI on batch mixing and cell-type conservation over a 161k-cell cohort. Trained the model at atlas scale and demonstrated near-zero leakage on out-of-distribution protocols.
Emergence Forecasting Model for Protein Hotspots
Kellis Lab
May 2026 - Present (5 months)
Built a predictive machine learning pipeline using XGBoost to forecast drug-resistant mutations in M. tuberculosis with a 0.971 AUROC. Integrated population homoplasy data with AlphaFold structural features and validated against 12,287 clinical isolates.
Full-Stack Software Engineer
Computer Science and Artificial Intelligence Laboratory (MIT
Nov 2025 - Present (11 months)
Developed full-stack features using Django, Three.js, WebSockets, and Celery for a 3D high-dimensional data platform, shipping 26 merged PRs and 400+ commits. Built a 2.5D map engine and led the Celery-based Materialization Pipeline.
Student Fundraiser and Volunteer
The Citizens Foundation (TCF)
Jul 2022 - Present (4 years 3 months)
Raised over $23,000 to support underprivileged children's education, equivalent to a year's education for 166 children. Invited to speak at national fundraising events and recognized as top fundraiser for the youth cohort twice.
Troop Guide / Assistant Senior Patrol Leader
Boy Scouts of America, Troop 813
Aug 2021 - Present (5 years 2 months)
Led patrols, organized community service projects, and mentored younger scouts in leadership and civic responsibility. Current Life Scout with Eagle Scout expected by mid 2027.
Research Co-Author / Contributor
Collaborative
Jul 2026 - Aug 2026 (1 month)
Co-authored a framework for per-modality failure analysis in multimodal clinical AI, engineering a reusable evaluation harness with mask-aware probes. Validated the framework on frozen EchoJEPA and HuBERT-ECG embeddings over a MIMIC-IV cohort.
Computational Peptide Design for BBB-Penetrant EGFRvIII Targeting
Collaborative
Nov 2025 - Mar 2026 (4 months)
Built an automated in silico pipeline for BBB-penetrant peptide design targeting EGFRvIII in glioblastoma. Identified a top-ranked cyclized Angiopep-2/GE11 fusion candidate through structural prediction and docking.
Gastroenterologist Assistant / Clinical Shadowing Student
HCA Florida – West Palm Beach
Jul 2025 - Aug 2025 (1 month)
Assisted a gastroenterologist in patient consultations, observing diagnostic workflows and treatment planning. Gained hands-on exposure to clinical procedures including endoscopic techniques and biopsy collection.
Education
Degrees, certifications, and relevant coursework
American Heritage Schools - Broward Campus
High School Diploma, Premed Program
2026 -
Grade: Weighted GPA ~ 4.63/4.0, Unweighted GPA ~ 4.0/4.0
Activities and societies: HOSA, Pre-Med Society, USABO, Mu Alpha Theta
Pursuing a High School Diploma in the Premed Program with a weighted GPA of approximately 4.63/4.0 and unweighted GPA of 4.0/4.0.
Jumeirah College
High School Diploma, General Studies
2024 - 2026
Grade: Weighted GPA ~ 3.9/4.0, Unweighted GPA ~ 3.8/4.0; GCSE: 3 A**, 5 A*, 1 B+
Activities and societies: MUN, WSC, JC Econ magazine; Founder of Mu Alpha Theta’s JC chapter; Captain of JC Rugby Squad (2024-25)
Completed a High School Diploma with a weighted GPA of approximately 3.9/4.0 and unweighted GPA of 3.8/4.0, achieving strong GCSE scores.
Tech stack
Software and tools used professionally
Availability
Location
Authorized to work in
Website
sites.mit.edu/alydhedhiSalary expectations
Skills
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