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Pre-prints
* Equally Contributing authors; +Corresponding/Senior Authors 

Savino A, Liaci C, Bertani I, Rando S, Camera M, Merlo GR, Avalle L, Poli V+, Kalebic N+, Iorio F+ 

Lysergic acid diethylamide reverses aging- and neurodegeneration-associated brain transcriptional programs

2026 bioRxiv

Savino A*, Oikonomou A*, De Lucia RR, Grau ML, McCarten K, Najgebauer H, Perron U, Azzolin L, Livanova A, Cremaschi P,  Lopez-Bigas N, Sottoriva A, Iorio F+ 

CRISPR-enhanced assessment of variants of unknown significance nominates oncology therapeutic targets and drug repositioning opportunities

2026 bioRxiv

Articles published in peer-reviewed journals
* Equally Contributing authors; +Corresponding/Senior Authors 

[34]

Iorio F*+, Garnett MJ*+, Beltrao P, Billmann M, Bless L, Bock C, Boutros M, Bruna A, Carninci P, Ciriello G, Cortés-Ciriano I, D'Alessandro G,

Esposito R, Faletti S, Gonçalves E, Haider S, Kalebic N, Kaulich M, Leuzzi G, Lopez-Bigas N, Lord CJ, Petsalaki E, Pettitt S, Proietti L, Rad R, Radic N, Ryan CJ, Schmid-Burgk JL, Sharma S, Sottoriva A, Tape C, Trusolino L, van Leeuwen J, Walter D, Wessels L, the PRECISE consortium

PRECISE as a European initiative for cancer-vulnerability mapping and prediction

Nature Genetics 2026 [Accepted for publication]

[33]

Proietti L, Beltrao P, Bruna A, Cortés-Ciriano I, Garnett MJ, Gonçalves E, Herranz-Ors C, Kaulich M, Lord CJ, Petsalaki E, Rad R, Ryan CJ, Savino A, Sesia D, Wessels L, Iorio F+

Genetic interactions, synthetic lethality and complexity in cancer vulnerability mapping—Insights and perspectives from the 2nd EuroDepMap symposium

FEBS Letters 2026 - April Publisher site

[32]

Evans LD, Strano A, Tuck E, Campbell A, Smith J, Hung C, Behr TS, Ghetti B, Ryskeldi-Falcon B, Karakoc E, Iorio F, Reith A, Bassett AR, Livesey FJ

Tau uptake by human neurons depends on receptor LRP1 and kinase LRRK2

The EMBO Journal 2025 - Aug 11 Publisher site

[31]

Chan PY, Alexander D, Mehta I, Matsuyama LSAS, Harle V, Olvera-León R, Park JS, Arriaga-González FG, van der Weyden L, Cheema S, Iyer V, Offord V, Barneda D, Hawkins P, Stephens L, Kozik Z, Woods M, Wong K, Balmus G, Vinceti A, Thompson NA, Del Castillo Velasco-Herrera M, Wessels L, van de Haar J, Gonçalves E, Sinha S, Vázquez-Cruz ME, Bisceglie L, Raimondi F, Choudhary J, Patiyal S, Venkatesh A, Iorio F, Ryan CJ, Adams DJ+

The synthetic lethal interaction between CDS1 and CDS2 is a vulnerability in uveal melanoma and across multiple tumor types

Nature Genetics 2025 - Jul;57(7):1672-1683 Publisher site

[30]

Savino A+, Iannuzzi RM, Avalle L, Lobascio A, Iorio F, Provero P+, Poli V+ 

Cross-tissue gene expression interactions from bulk, single cell and spatial transcriptomics with crossWGCNA

BMC Genomics 2025 - 26, 583 Publisher site

[29]

Galera MR, Oikonomou A, Elsborg JD, Harth L, Fischer-Nielsen A, Løvendorf MB, Dyring-Andersen B, Iorio F, Fog LM, Woetmann A, Svalgaard JD+

Impact of cell culture transition on adipose-derived mesenchymal stromal cells: Multi-omics analysis of small-vs large-scale production

Molecular Therapy Methods & Clinical Development 2025 Jun 16;33(3):101512 Publisher site

[28]

Barelli C, Kaluthantrige Don F, Iannuzzi RM, Faletti S, Bertani I, Osei I, Sorrentino S, Villa G, Sokolova V, Campione A, Minotti MR, Sicuri GM, Stefini R, Iorio F, Nereo Kalebic+

Morphoregulatory ADD3 underlies glioblastoma growth and formation of tumor-tumor connections

Life Science Alliance 2025, Feb vol 8 (2):e202402823 Publisher site

[26]

Vinceti A, Iannuzzi RM, Boyle I, Trastulla L, Campbell CD, Vazquez F, Dempster JM, Iorio F+

A benchmark of computational methods for correcting biases of established and unknown origin in CRISPR-Cas9 screening data

Genome Biology 2024, 25, 192 Publisher site

[25]

Perron U*, Grassi E*, Chatzipli A*, Viviani M, Karakoc E, Trastulla L, Brochier LM, Isella C, Zanella ER, Klett H, Molineris I, Schueler J, Esteller M, Medico E, Conte N, McDermott U, Trusolino L+, Bertotti A+, Iorio F+

Integrative ensemble modelling of cetuximab sensitivity in colorectal cancer patient-derived xenografts

Nature Communications 2024, Nov 11;15(1):9139 Publisher site

[24]

Trastulla L, Dolgalev G, Moser S, Jiménez-Barrón LT, Andlauer FMT, Von Scheidt M, Schizophrenia Working Group Of The Psychiatric Genomics Consortium, Budde M, Heilbronner U, Papiol S, Teumer A, Homuth G, Völzke H, Dörr M, Falkai P, Schulze GT, Gagneur J, Iorio F, Müller-Myhsok B, Ziller MJ+

Distinct genetic liability profiles define clinically relevant patient strata across common diseases

Nature Communications 2024, 15, 5534 Publisher site

[23]

Pacini C, Duncan E, Gonçalves E, Gilbert J, Bhosle S, Horswell S, Karakoc E, Lightfoot H, Curry E, Muyas F, Bouaboula M, Pedamallu CS, Cortes-Ciriano I, Behan FM, Zalmas L, Barthorpe A, Francies H, Rowley S, Pollard J, Beltrao P, Parts L, Iorio F+, Garnett MJ+

A comprehensive clinically informed map of dependencies in cancer cells and framework for target prioritization

Cancer Cell 2024, Volume 42, Issue 2, 301 - 316.e9 Publisher site

[22]

Iannuzzi RM,  Manipur I, Pacini C, Behan FM, Guarracino MR, Garnett MJ, Savino A+, Iorio F+

Benchmark Software and Data for Evaluating CRISPR-Cas9 Experimental Pipelines Through the Assessment of a Calibration Screen

The CRISPR Journal 2024, Dec;7(6):355-365 Publisher site

[21]

Vinceti A, Trastulla L, Perron U, Raiconi A+, Iorio F+

A heuristic algorithm solving the mutual-exclusivity sorting problem Bioinformatics

Bioinformatics 2023, Jan 1;39(1):btad016 Publisher site

[19]

Vinceti A*, De Lucia RR*, Cremaschi P, Perron U, Karacok E, Mauri L, Fernandez C, Kluczynski KH, Anderson DS, Iorio F+

An interactive web application for processing, correcting, and visualizing genome-wide pooled CRISPR-Cas9 screens

Cell Reports Methods 2023, Aug;597(15):1921-1927 Publisher site

[18]

Angioni R*, Bonfanti M*, Caporale N*, Sánchez-Rodríguez R*, Munari F, Savino A, Pasqualato S, Buratto S, Pagani I, Bertoldi N, Zanon C, Ferrari P, Ricciardelli E, Putaggio C, Ghezzi S, Elli F, Rotta L, Scardua A, Weber J, Cecatiello V, Iorio F, Zonta F, Cattelan AM, Vicenzi E, Vannini A, Molon B, Villa CE, Viola A+, Testa G+

RAGE engagement by SARS-CoV-2 enables monocyte infection and underlies COVID-19 severity

Cell Reports Medicine 2023, Nov 21;4(11):101266 Publisher site

[17]

Trastulla L, Noorbakhsh J, Vazquez F, McFarland J, Iorio F+

Computational estimation of quality and clinical relevance of cancer cell lines

Molecular Systems Biology 2022, Jul;18(7):e11017 Publisher site

[16]

Househam J*, Heide T*, Cresswell GD, Spiteri I, Kimberley C, Zapata L, Lynn C, James C, Mossner M, Fernandez-Mateos J, Vinceti A, Baker A, Gabbutt C, Berner A, Schmidt M, Chen B, Lakatos E, Gunasri V, Nichol D, Costa H, Mitchinson M, Ramazzotti D, Werner B, Iorio F, Jansen M, Caravagna G, Barnes C, Shibata D, Bridgewater J, Rodriguez-Justo M, Magnani L, Sottoriva A+, Graham TA+

Computational estimation of quality and clinical relevance of cancer cell lines

Nature 2022, Nov;611(7937):744-753 Publisher site

[15]

Vinceti A, Perron U, Trastulla L, Iorio F+

Reduced gene templates for supervised analysis of scale-limited CRISPR-Cas9 fitness screens

Cell Reports 2022, Jul 26;40(4):111145 Publisher site

[14]

Christodoulou E, Rashid M, Pacini C, Droop A, Robertson H, van Groningen T, FAS Teunisse A, Iorio F, Jochemsen AG, Adams DJ, van Doorn R+

Analysis of CRISPR‐Cas9 screens identifies genetic dependencies in melanoma

Pigment Cell & Melanoma Research 2021, Jan;34(1):122-131 Publisher site

[13]

Boehm JS+, Garnett MJ+, Adams DJ, Francies HE, Golub TR, Hahn WC, Iorio F, McFarland JM, Parts L, Vazquez F 

Cancer research needs a better map

Nature 2021, Jan;589(7843):514-516 Publisher site

[12]

Vinceti A, Karakoc E, Pacini C, Perron U, De Lucia RR, Garnett MJ, Iorio F+

CoRe: A robustly benchmarked R package for the identification of core fitness genes in genome-wide pooled CRISPR knock-out screens

BMC Genomics 2021, Nov 17;22(1):828 Publisher site

[11]

Thompson NA, Ranzani M, van der Weyden L, Iyer V, Offord V, Droop A, Behan F, Gonçalves E, Speak A, Iorio F, Hewinson J, Harle V, Robertson H, Anderson E, Fu B, Yang F, Zagnoli-Vieira G, Chapman P, Del Castillo Velasco-Herrera M, Garnett MJ, Jackson SP, Adams DJ+ 

Combinatorial CRISPR screen identifies fitness effects of gene paralogues

Nature Communications 2021, Feb 26;12(1):1302 Publisher site

[10]

Ziccheddu B, Claudio Da Via M, Lionetti M, Maeda A, Morlupi S, Dugo M, Todoerti K, Oliva S, D'Agostino M, Corradini P, Landgren O, Iorio F, Pettine L, Pompa A, Manzoni M, Baldini L, Neri A, Maura F, Bolli N 

Functional impact of genomic complexity on the transcriptome of Multiple Myeloma

Clinical Cancer Research 2021, Dec 1;27(23):6479-6490 Publisher site

[9]

Pacini C, Dempster JM, Gonçalves E, Najgebauer H, Karakoc E, van der Meer D, Barthorpe A, Lightfoot H, Jaaks P, McFarland JM, Garnett MJ, Tsherniak A, Iorio F+

Integrated cross-study datasets of genetic dependencies in cancer

Nature Communications 2021, Mar 12;12(1):1661 Publisher site

[8]

Gonçalves E, Thomas M, Behan FM, Picco G, Pacini C, Allen F, Vinceti A, Sharma M, Jackson DA, Price S, Beaver CM, Dovey O, Parry-Smith D, Iorio F, Parts L, Yusa K, Garnett MJ+

Minimal genome-wide human CRISPR-Cas9 library

Genome Biology 2021, Jan 21;22(1):40 Publisher site

[7]

Dwane L, Behan FM, Gonçalves E, Lightfoot H, Yang W, van der Meer D, Shepherd R, Pignatelli M, Iorio F, Garnett MJ+

Project Score: an open resource for investigating cancer cell dependencies and therapeutics targets

Nucleic Acids Research 2021, Jan 8;49(D1):D1365-D1372 Publisher site

[6]

Najgebauer H*, Perron U*, Iorio F+

Redefining false discoveries in cancer data analyses

Nature Computational Science 2021, Jan;1(1):22-23 Publisher site

[5]

Najgebauer H, Yang M, Francies HE, Pacini C, Stronach EA, Garnett MJ, Saez-Rodriguez J, Iorio F+

CELLector: Genomics-Guided Selection of Cancer In Vitro Models

Cell Systems 2020, May 20;10(5):424-432.e6 Publisher site

[4]

Gonçalves E, Segura‐Cabrera A, Pacini C, Picco G, Behan FM, Jaaks P, Coker EA, van der Meer D, Barthorpe A, Lightfoot H, Mironenko T, Beck A, Richardson L, Yang W, Lleshi E, Hall J, Tolley C, Hall C, Mali I, Thomas F, Morris J, Leach AR, Lynch JT, Sidders B, Crafter C, Iorio F, Fawell S, Garnett MJ+

Drug mechanism‐of‐action discovery through the integration of pharmacological and CRISPR screens

Molecular Systems Biology 2020, Jul;16(7):e9405 Publisher site

[3]

Ayestaran I, Galhoz A, Spiegel E, Sidders B, Dry JR, Dondelinger F, Bender A, McDermott U, Iorio F, Menden MP+

Identification of Intrinsic Drug Resistance and Its Biomarkers in High-Throughput Pharmacogenomic and CRISPR Screens

Patterns 2020, Jul 2;1(5):100065 Publisher site

[2]

Ayestaran I, Galhoz A, Spiegel E, Sidders B, Dry JR, Dondelinger F, Bender A, McDermott U, Iorio F, Menden MP+

Identification of Intrinsic Drug Resistance and Its Biomarkers in High-Throughput Pharmacogenomic and CRISPR Screens

Patterns 2020, Jul 2;1(5):100065 Publisher site

[1]

Dempster J*, Pacini C*, Pantel S, Behan FM, Green T, Krill-Burger J, Beaver CM, Younger ST, Zhivich V, Najgebauer H, Allen F, Gonçalves E, Shepherd R, Doench J, Yusa K, Vazquez F, Parts L, Boehm J, Golub TR, Hahn WC, Root DE, Garnett MJ, Tsherniak A+, Iorio F+

Agreement between two large pan-cancer genome-wide CRISPR Knock-out datasets

Nature Communications 2019, Dec 20;10(1):5817 Publisher site

[33]

Proietti L, Beltrao P, Bruna A, Cortés-Ciriano I, Garnett MJ, Gonçalves E, Herranz-Ors C, Kaulich M, Lord CJ, Petsalaki E, Rad R, Ryan CJ, Savino A, Sesia D, Wessels L, Iorio F+

Genetic interactions, synthetic lethality and complexity in cancer vulnerability mapping—Insights and perspectives from the 2nd EuroDepMap symposiu

FEBS Letters 2026 - April Publisher site