YAM AMIR // TGGR LAB

YAMIR-1138

YAM AMIR

Genetics · structural bioinformatics · genomics

PhD student · TGGR Lab

I work on how proteins and genomes are put together: how a receptor switches on, how one gene can sit inside another, and what rare variants do in the clinic. The things below were built along the way.

> SELECTED PROJECTS

  • ChimeraX plugin

    Pellaeon

    Talk to UCSF ChimeraX in plain English. A chat panel inside ChimeraX that turns what you type into commands, and shows you every command it ran.

    • on the ChimeraX Toolshed
    • local or cloud models
    • asks before anything destructive

    open siterepo

  • Database

    GPCompaRe

    A database of what changes when a receptor switches on. Residue contacts compared between active and inactive states, receptor by receptor.

    • 283 human Class A GPCRs
    • active and inactive conformations
    • residue-residue contact analysis

    open siterepo

> SIDE QUESTS

  • Web app

    3 tubes · Σ = 0 · click a slot

    ΣpinZero

    Balances centrifuge rotors with number theory and roots of unity.

    Σspin = 0, or it wobbles.

    open apprepo

  • Pipeline · reports

    GeNest

    Finds nested genes: genes that live inside other genes, across whole genomes.

    A gene within a gene. We need to go deeper.

    open reportsrepo

  • Hardware · ESP32

    CO₂ Monitor

    A DIY CO₂ and temperature monitor for cell culture incubators, built on an ESP32.

    Full build guide, with ten days of real data.

    open guiderepo

  • Web app

    DOUGH_FORMULATOR

    A retro sourdough calculator built on true baker's percentages.

    Calculate. Ferment. Ascend.

    open apprepo

  • SLOT

    next strange thing ..... [ pending ]

> ABOUT

CREW FILEYAM AMIR · YAMIR-1138

role
PhD student at the TGGR Lab (Translational Genetics and Genomics Research), Tel Aviv Sourasky Medical Center & Tel Aviv University
work
GPCR activation and protein structure, nested genes, clinical genomics, the odd piece of lab hardware
papers
13 publications, 2020 to 2025, listed on ORCID
toolkit
Linux · R · Arduino and ESP32 · Claude Code · GraphPad Prism
find me
GitHub · ORCID · Scholar · ResearchGate · LinkedIn · TGGR Lab

DISPLAYclick to change

TRANSLATION

>_ terminal press / or click to type commands

type help and press enter. exit closes it.