User profiles for Greg Finak

Greg Finak

CTO, Ozette Technologies
Verified email at ozette.ai
Cited by 9044

[HTML][HTML] MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data

G Finak, A McDavid, M Yajima, J Deng, V Gersuk… - Genome biology, 2015 - Springer
Single-cell transcriptomics reveals gene expression heterogeneity but suffers from stochastic
dropout and characteristic bimodal expression distributions in which expression is either …

Stromal gene expression predicts clinical outcome in breast cancer

G Finak, N Bertos, F Pepin, S Sadekova… - Nature medicine, 2008 - nature.com
Although it is increasingly evident that cancer is influenced by signals emanating from tumor
stroma, little is known regarding how changes in stromal gene expression affect epithelial …

[HTML][HTML] Critical assessment of automated flow cytometry data analysis techniques

N Aghaeepour, G Finak, FlowCAP Consortium… - Nature …, 2013 - nature.com
Traditional methods for flow cytometry (FCM) data processing rely on subjective manual
gating. Recently, several groups have developed computational methods for identifying cell …

Safety and immunogenicity of a mRNA rabies vaccine in healthy adults: an open-label, non-randomised, prospective, first-in-human phase 1 clinical trial

…, U Gnad-Vogt, HS Hong, KT Mehr, L Backert, G Finak… - The Lancet, 2017 - thelancet.com
Background Vaccines based on mRNA coding for antigens have been shown to be safe and
immunogenic in preclinical models. We aimed to report results of the first-in-human proof-of-…

Data exploration, quality control and testing in single-cell qPCR-based gene expression experiments

A McDavid, G Finak, PK Chattopadyay… - …, 2013 - academic.oup.com
Motivation: Cell populations are never truly homogeneous; individual cells exist in
biochemical states that define functional differences between them. New technology based on …

Vaccination induces HIV broadly neutralizing antibody precursors in humans

…, O Kalyuzhniy, CA Cottrell, S Menis, G Finak… - Science, 2022 - science.org
Broadly neutralizing antibodies (bnAbs) can protect against HIV infection but have not been
induced by human vaccination. A key barrier to bnAb induction is vaccine priming of rare …

[HTML][HTML] Standardizing flow cytometry immunophenotyping analysis from the human immunophenotyping consortium

G Finak, M Langweiler, M Jaimes, M Malek… - Scientific reports, 2016 - nature.com
Standardization of immunophenotyping requires careful attention to reagents, sample handling,
instrument setup, and data analysis, and is essential for successful cross-study and cross…

COMPASS identifies T-cell subsets correlated with clinical outcomes

L Lin, G Finak, K Ushey, C Seshadri, TR Hawn… - Nature …, 2015 - nature.com
Advances in flow cytometry and other single-cell technologies have enabled high-dimensional,
high-throughput measurements of individual cells as well as the interrogation of cell …

Regulation of endocytosis via the oxygen-sensing pathway

Y Wang, O Roche, MS Yan, G Finak, AJ Evans… - Nature medicine, 2009 - nature.com
Tumor hypoxia is associated with disease progression, resistance to conventional cancer
therapies and poor prognosis 1 , 2 . Hypoxia, by largely unknown mechanisms, leads to …

[HTML][HTML] OpenCyto: an open source infrastructure for scalable, robust, reproducible, and automated, end-to-end flow cytometry data analysis

G Finak, J Frelinger, W Jiang, EW Newell… - PLoS computational …, 2014 - journals.plos.org
Flow cytometry is used increasingly in clinical research for cancer, immunology and
vaccines. Technological advances in cytometry instrumentation are increasing the size and …