Francesca Finotello
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Pan-cancer immunogenomic analyses reveal genotype-immunophenotype relationships and predictors of response to checkpoint blockade
P Charoentong, F Finotello, M Angelova, C Mayer, M Efremova, D Rieder, ...
Cell Reports 18 (1), 248-262, 2017
Global genomic and transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism
J Fadista, P Vikman, EO Laakso, IG Mollet, JL Esguerra, J Taneera, ...
Proceedings of the National Academy of Sciences 111 (38), 13924-13929, 2014
Inferring causal molecular networks: empirical assessment through a community-based effort
SM Hill, LM Heiser, T Cokelaer, M Unger, NK Nesser, DE Carlin, Y Zhang, ...
Nature Methods 13 (4), 310-318, 2016
Measuring differential gene expression with RNA-seq: challenges and strategies for data analysis
F Finotello, B Di Camillo
Briefings in functional genomics 14 (2), 130-142, 2015
Computational genomics tools for dissecting tumour-immune cell interactions
H Hackl, P Charoentong, F Finotello, Z Trajanoski
Nature Reviews Genetics 17 (8), 441-458, 2016
Quantifying tumor-infiltrating immune cells from transcriptomics data
F Finotello, Z Trajanoski
Cancer Immunology, Immunotherapy 67 (7), 1031-1040, 2018
Neoantigens generated by individual mutations and their role in cancer immunity and immunotherapy
M Efremova, F Finotello, D Rieder, Z Trajanoski
Frontiers in immunology 8, 1679, 2017
Comprehensive evaluation of computational cell-type quantification methods for immuno-oncology
G Sturm, F Finotello, F Petitprez, JD Zhang, J Baumbach, WH Fridman, ...
BioRxiv, 463828, 2019
Targeting immune checkpoints potentiates immunoediting and changes the dynamics of tumor evolution
M Efremova, D Rieder, V Klepsch, P Charoentong, F Finotello, H Hackl, ...
Nature Communications 9 (1), 32, 2018
Molecular and pharmacological modulators of the tumor immune contexture revealed by deconvolution of RNA-seq data
F Finotello, C Mayer, C Plattner, G Laschober, D Rieder, H Hackl, ...
Genome medicine 11 (1), 34, 2019
Deviations of the immune cell landscape between healthy liver and hepatocellular carcinoma
N Rohr-Udilova, F Klinglmüller, R Schulte-Hermann, J Stift, M Herac, ...
Scientific Reports 8 (1), 6220, 2018
A genome-wide association study of diabetic kidney disease in subjects with type 2 diabetes
NR van Zuydam, E Ahlqvist, N Sandholm, H Deshmukh, NW Rayner, ...
Diabetes 67 (7), 1414-1427, 2018
Next-generation computational tools for interrogating cancer immunity
F Finotello, D Rieder, H Hackl, Z Trajanoski
Nature Reviews Genetics, 1-23, 2019
TIminer: NGS data mining pipeline for cancer immunology and immunotherapy
E Tappeiner, F Finotello, P Charoentong, C Mayer, D Rieder, Z Trajanoski
Bioinformatics 33 (19), 3140-3141, 2017
Reducing bias in RNA sequencing data: a novel approach to compute counts
F Finotello, E Lavezzo, L Bianco, L Barzon, P Mazzon, P Fontana, ...
BMC Bioinformatics 14 (Suppl 1), S7, 2014
Mitochondrial DNA Drives Abscopal Responses to Radiation that are Inhibited by Autophagy
T Yamazaki, A Kirchmair, M Rybstein, A Buqué, A Sato, G Petroni, N Bloy, ...
CELL-D-19-03021, 2019
Multi-omics profiling of the tumor microenvironment: paving the way to precision immuno-oncology
F Finotello, F Eduati
Frontiers in oncology 8, 2018
New strategies for cancer immunotherapy: targeting regulatory T cells
F Finotello, Z Trajanoski
Genome Medicine 9 (1), 10, 2017
Comparative analysis of algorithms for whole-genome assembly of pyrosequencing data
F Finotello, E Lavezzo, P Fontana, D Peruzzo, A Albiero, L Barzon, ...
Briefings in bioinformatics 13 (3), 269-280, 2012
Measuring the diversity of the human microbiota with targeted next-generation sequencing
F Finotello, E Mastrorilli, B Di Camillo
Briefings in bioinformatics 19 (4), 679-692, 2018
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