Staff Profiles

Aarthi Talla

Senior Bioinformatician

Aarthi Talla is currently a Senior Bioinformatician at the Allen Institute for Immunology. She graduated with a master’s degree in Bioinformatics from Georgia Institute of Technology in 2010. Since 2011, she has more than 8 years of professional experience as a computational biologist, more specifically as a Systems Immunologist. She was involved in understanding immune mechanisms associated with chronic HIV infection and the latent HIV reservoir, understanding the mechanisms that drive heterogenous responses to clinical immuno-therapies in patients with HIV and refractory malignancies. She was also involved in identifying immune correlates of response to CAR T-cell therapy. In order to do so, she applies systems biology, statistical and machine learning approaches to integrate several multi-omics data measured on the same patients, such as bulk and single-cell transcriptomics, Flow cytometry/Mass cytometry, proteomics, metabolomics and the microbiome to identify biomarkers of disease or understanding responses to immunotherapies at a ‘systemic level’. Currently her role at the institute is to identify immune mechanisms associated with progression and development of Rheumatoid Arthritis (RA) in patients who are clinically pre-disposed to developing RA. In addition, with the unfortunate COVID-19 pandemic and the need to understand how it has impacted different people in different ways, she is involved in studying how different immune responses are changing in due course of infection and dissecting the age and gender related differences in immune signaling pathways over time. She believes that understanding the immune system at a systemic level in context of disease will aid in effective interventions to eradicate disease and benefit the scientific and patient population.






Research Interests

Aarthi is co-leading the efforts on establishing strategies for analyzing single-cell RNA sequencing data. She is involved in establishing an analytical framework that could be leveraged by a wide variety of scientists, both non-coders and coders. She is involved in establishing an unsupervised learning framework for analyzing high dimensional flow cytometry data in an unbiased and an objective manner. One of the major projects she is currently involved in, is understanding the transient changes in immune signaling responses in patients infected with SARS-CoV2 over a longitudinal time course starting from very early days since symptom onset. The major focus has been to understand and dissect the heterogeneity in immune responses over time that could be attributed to age, gender, comorbidities etc.    


  • Computational biology
  • Systems Immunology

Research Programs


Selected Publications View Publications

Integrated systems approach defines the antiviral mechanism that confers protection by the RV144 HIV vaccine

Nature Communications
February 19, 2019

Fourati S, Ribeiro SP, Lopes FBTP, Talla A, Lefebvre F, Cameron M, Kaewkungwal J, Pitisuttithum P, Nitayaphan S, Rerks-Ngarm S, JKim JH, Thomas R, Gilbert PB, Tomaras GD, Koup RA, Michael NL, McElrath JM, Gottardo R, Sékaly RP

Differentiation to an effector memory phenotype potentiates HIV-l latency reversal in CD4+ T cells

Journal of Virology
November 26, 2019

Deanna A. Kulpa, Aarthi Talla, Jessica H. Brehm, Susan Pereira Ribeiro, Sally Yuan, Anne-Gaelle Bebin-Blackwell, Michael Miller, Richard Barnard, Steven G. Deeks, Daria Hazuda, Nicolas Chomont, Rafick-Pierre Sékaly

Cycling CD4+ T cells in HIV-infected immune nonresponders have mitochondrial dysfunction

The Journal of Clinical Investigation (JCI)
October 5, 2018

Younes SA, Talla A, Ribeiro SP, Saidakova EV, Korolevskaya LB, Shmagel KV, Shive CL, Freeman ML, Panigrahi S, Zweig S, Balderas R, Margolis L, Douek DC, Anthony DD, Pandiyan P, Cameron M, Sieg SF,1 Calabrese LH, Rodriguez B, Lederman MM

A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection

Nature Communications
October 24, 2018

Fourati S, Talla A, Mahmoudian M, Burkhart JG, Klén R, Henao R, Yu T, Aydın Z, Yeung KY, Ahsen ME, Almugbel R, Jahandideh S, Liang X, Nordling TEM, Shiga M, Stanescu A, Vogel R, The Respiratory Viral DREAM Challenge Consortium, Pandey G, Chiu C, McClain MT, Woods CW, Ginsburg GS, Elo LL, Tsalik EL, Mangravite LM, Sieberts SK

Novel mechanisms to inhibit HIV reservoir seeding using Jak inhibitors

PLoS Pathogens
December 21, 2017

Gavegnano C, Brehm JH, Dupuy FP, Talla A, Ribeiro SP, Kulpa DA, CCameron C, Santos S, Hurwitz SJ, VMarconi VC, Routy JP, Sabbagh L, Schinazi RF, Sékaly RP

Pre-vaccination inflammation and B-cell signaling predict age-related hyporesponse to hepatitis B vaccination

Nature Communications
January 8, 2016

Fourati S, Cristescu R, Loboda A, Talla A, Filali A, Railkar R, Schaeffer AK, Favre D, Gagnon D, Peretz Y, Wang IM, Beals CR, Casimiro DR, Carayannopoulos LN, SékalyRP