Daniel Marrama

Hi. I am a bioinformatician currently working in the Peters Lab at the La Jolla Institute for Immunology.

I work on building tools for the IEDB and conducting analyses on immunological data.

With a strong personal connection to autoimmune diseases, I'm dedicated to working on solving these conditions. My dedication to this field is fueled by the desire to improve the lives of those affected by autoimmunity.

Projects

PEPMatch

A peptide/epitope search tool against a proteome, or large sets of proteins, with residue subtitutions.

Associated Talk

IEDB Protein Tree

A tool mapping source antigens to genes and epitopes to parent proteins.

UniProtPy

A Python library that interfaces with UniProt.

Autoimmune Antigen Analysis

Exploring and predicting features of autoimmune antigens.

Myocarditis Analysis

A homology analysis of the SAR-CoV-2 spike protein to myocarditis-associated antigens.

Publications

Targets of T cell responses to SARS-CoV-2 coronavirus in humans with COVID-19 disease and unexposed individuals

2020 - Cell

Grifoni, Daniela Weiskopf, Sydney I Ramirez, Jose Mateus, Jennifer M Dan, Carolyn Rydyznski Moderbacher, Stephen A Rawlings, Aaron Sutherland, Lakshmanane Premkumar, Ramesh S Jadi, Daniel Marrama, Aravinda M de Silva, April Frazier, Aaron F Carlin, Jason A Greenbaum, Bjoern Peters, Florian Krammer, Davey M Smith, Shane Crotty, Alessandro Sette

Lack of evidence of significant homology of SARS-CoV-2 spike sequences to myocarditis-associated antigens

2022 - EBioMedicine - Associated Talk

Daniel Marrama, Jarjapu Mahita, Alessandro Sette, Bjoern Peters

Immunodominant MHC-II (Major Histocompatibility Complex II) Restricted Epitopes in Human Apolipoprotein B

2022 - Circulation Research

Payel Roy, John Sidney, Cecilia S Lindestam Arlehamn, Elizabeth Phillips, Simon Mallal, Sujit Silas Armstrong Suthahar, Monica Billitti, Paul Rubiro, Daniel Marrama, Fabrizio Drago, Jenifer Vallejo, Vasantika Suryawanshi, Marco Orecchioni, Jeffrey Makings, Paul J Kim, Coleen A McNamara, Bjoern Peters, Alessandro Sette, Klaus Ley

Bioinformatic Analysis Underpinning the Frequent Occurrence of Immune Thrombocytopenic Purpura in COVID-19 Patients.

2022 - The Israel Medical Association Journal

Arthur E Frankel, Dennis Wylie, Bjoern Peters, Daniel Marrama, Chul Ahn

T cell reactivity to Bordetella pertussis is highly diverse regardless of childhood vaccination

2023 - Cell Host & Microbe

Ricardo da Silva Antunes, Emily Garrigan, Lorenzo G Quiambao, Sandeep Kumar Dhanda, Daniel Marrama, Luise Westernberg, Eric Wang, Adam Abawi, Aaron Sutherland, Sandra K Armstrong, Timothy J Brickman, John Sidney, April Frazier, Tod J Merkel, Bjoern Peters, Alessandro Sette

PEPMatch: a tool to identify short peptide sequence matches in large sets of proteins

2023 - BMC Bioinformatics

Daniel Marrama, William D Chronister, Luise Westernberg, Randi Vita, Zeynep Koşaloğlu-Yalçın, Alessandro Sette, Morten Nielsen, Jason A Greenbaum, Bjoern Peters