ALESSANDRÌ, Luca
ALESSANDRÌ, Luca
BIOTECNOLOGIE MOLECOLARI E SCIENZE PER LA SALUTE
A single cell RNAseq benchmark experiment embedding "controlled" cancer heterogeneity
2024-01-01 Arigoni, Maddalena; Ratto, Maria Luisa; Riccardo, Federica; Balmas, Elisa; Calogero, Lorenzo; Cordero, Francesca; Beccuti, Marco; Calogero, Raffaele A; Alessandri, Luca
Apoptotic Cell Exclusion and Bias-Free Single-Cell Selection Are Important Quality Control Requirements for Successful Single-Cell Sequencing Applications
2019-01-01 Ordoñez-Rueda, Diana; Baying, Bianka; Pavlinic, Dinko; Alessandri, Luca; Yeboah, Yvonne; Landry, Jonathan J M; Calogero, Raffaele; Benes, Vladimir; Paulsen, Malte
Bringing Cell Subpopulation Discovery on a Cloud-HPC Using rCASC and StreamFlow
2023-01-01 Contaldo, Sandro G.; Alessandri, Luca; Colonnelli, Iacopo; Beccuti, Marco; Aldinucci, Marco
Computational Analysis of Single-Cell RNA-Seq Data
2021-01-01 Alessandri L.; Cordero F.; Beccuti M.; Arigoni M.; Calogero R.A.
CONNECTOR, fitting and clustering of longitudinal data to reveal a new risk stratification system
2023-01-01 Pernice, Simone; Sirovich, Roberta; Grassi, Elena; Viviani, Marco; Ferri, Martina; Sassi, Francesco; Alessandrì, Luca; Tortarolo, Dora; Calogero, Raffaele A; Trusolino, Livio; Bertotti, Andrea; Beccuti, Marco; Olivero, Martina; Cordero, Francesca
CREDO: a friendly Customizable, REproducible, DOcker file generator for bioinformatics applications
2024-01-01 Alessandri, Simone; Ratto, Maria L.; Rabellino, Sergio; Piacenti, Gabriele; Contaldo, Sandro Gepiro; Pernice, Simone; Beccuti, Marco; Calogero, Raffaele A.; Alessandri, Luca
Differential expression analysis in single-cell transcriptomics
2019-01-01 Alessandri L.; Arigoni M.; Calogero R.
Epigenetic changes by EZH2 inhibition increase translocations in B cells with high AID activity or DNA repair deficiency
2025-01-01 Tao, Jianli; Alessandri, Luca; Gasparetto, Alessandro; Zhao, Lijuan; Zhang, Xuefei; Alt, Frederick W.; Chiarle, Roberto
FairFlow: A transparency-first framework for verifiable and reproducible bioinformatics
2026-01-01 D'Onofrio, Agata; Martelli, Eliseo; Alessandri, Maurizio; Bucatariu, Sebastian; Contaldo, Sandro Gepiro; Ratto, Maria Luisa; Tao, Jianli; Nuvolari, Beatrice; Castellano, Isabella; Loiacono, Andrea; Bianchi, Sara; Arigoni, Maddalena; Bertero, Alessandro; Balmas, Elisa; Chiarle, Roberto; Alessandri, Luca
Functional-Feature-Based Data Reduction Using Sparsely Connected Autoencoders
2023-01-01 Alessandri, Luca; Calogero, Raffaele A
GPTBioInsightor—leveraging large language models for transparent scRAN-seq cell type annotations
2026-01-01 Shenghui Huang, Berina Sabanovic, Yuzhong Peng, Quan Zheng, Luca Alessandrì, Christopher Heeschen
Identifying Gene Markers Associated with Cell Subpopulations
2023-01-01 Ratto, Maria Luisa; Alessandri, Luca
Interleukin-1 receptor-associated kinase 1 controls chemoresistance and immuno-killing in non-small cell lung cancer
2026-01-01 Digiovanni, Sabrina; Giannotta, Claudia; Alessandri, Luca; Fontana, Simona; Meoli, Angelo; Bironzo, Paolo; Merlini, Alessandra; Doronzo, Gabriella; Sushant, Parab; Balmas, Elisa; Akman, Muhlis; Kopecka, Joanna; Arigoni, Maddalena; Napoli, Francesca; Wens, Julia; Tarallo, Samuele; Bertero, Alessandro; Guglielmo, Stefano; Rolando, Barbara; Palma, Davide; Righi, Luisella; Massaia, Massimo; Calogero, Raffaele; Bussolino, Federico; Novello, Silvia; Scagliotti, Giorgio Vittorio; Salaroglio, Iris Chiara; Riganti, Chiara
Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service
2021-01-01 Tangaro M.A.; Mandreoli P.; Chiara M.; Donvito G.; Antonacci M.; Parisi A.; Bianco A.; Romano A.; Bianchi D.M.; Cangelosi D.; Uva P.; Molineris I.; Nosi V.; Calogero R.A.; Alessandri L.; Pedrini E.; Mordenti M.; Bonetti E.; Sangiorgi L.; Pesole G.; Zambelli F.
MET Exon 14 Skipping: A Case Study for the Detection of Genetic Variants in Cancer Driver Genes by Deep Learning
2021-01-01 Nosi, Vladimir; Luca, Alessandrì; Milan, Melissa; Arigoni, Maddalena; Benvenuti, Silvia; Cacchiarelli, Davide; Cesana, Marcella; Riccardo, Sara; Di Filippo, Lucio; Cordero, Francesca; Beccuti, Marco; Comoglio, Paolo M.; Calogero, Raffaele A.
Molecular and functional characterization of urine-derived podocytes from patients with Alport syndrome
2020-01-01 Iampietro C.; Bellucci L.; Arcolino F.O.; Arigoni M.; Alessandrì L.; Gomez Y.; Papadimitriou E.; Calogero R.A.; Cocchi E.; Van Den Heuvel L.; Levtchenko E.; Bussolati B.
rCASC: reproducible classification analysis of single-cell sequencing data
2019-01-01 Alessandrì, Luca; Cordero, Francesca; Beccuti, Marco; Arigoni, Maddalena; Olivero, Martina; Romano, Greta; Rabellino, Sergio; Licheri, Nicola; De Libero, Gennaro; Pace, Luigia; Calogero, Raffaele A
Reproducible bioinformatics project: A community for reproducible bioinformatics analysis pipelines
2018-01-01 Neha Kulkarni, Luca Alessandrì, Riccardo Panero, Maddalena Arigoni, Martina Olivero, Giulio Ferrero, Francesca Cordero, Marco Beccuti, Raffaele A. Calogero
Reproducible Classification and Analysis for Single Cell, rCASC
2020-12-09
Semaphorin3A induces fibroblast polarization towards an antitumor phenotype in pancreatic ductal adenocarcinoma
2025-01-01 Carina Florina Cojocaru, Serena Brundu, Nicolò Bertalmio, Jessica Erriquez, Roberta Porporato, Maddalena Arigoni, Luca Alessandrì, Giuseppe R. Diaferia, Pierluigi Di Chiaro, Raffaele Calogero, Martina Olivero, Enrico Giraudo
| Titolo | Data di pubblicazione | Autore(i) | File |
|---|---|---|---|
| A single cell RNAseq benchmark experiment embedding "controlled" cancer heterogeneity | 2024 | Arigoni, Maddalena; Ratto, Maria Luisa; Riccardo, Federica; Balmas, Elisa; Calogero, Lorenzo; Cordero, Francesca; Beccuti, Marco; Calogero, Raffaele A; Alessandri, Luca | |
| Apoptotic Cell Exclusion and Bias-Free Single-Cell Selection Are Important Quality Control Requirements for Successful Single-Cell Sequencing Applications | 2019 | Ordoñez-Rueda, Diana; Baying, Bianka; Pavlinic, Dinko; Alessandri, Luca; Yeboah, Yvonne; Landry, Jonathan J M; Calogero, Raffaele; Benes, Vladimir; Paulsen, Malte | |
| Bringing Cell Subpopulation Discovery on a Cloud-HPC Using rCASC and StreamFlow | 2023 | Contaldo, Sandro G.; Alessandri, Luca; Colonnelli, Iacopo; Beccuti, Marco; Aldinucci, Marco | |
| Computational Analysis of Single-Cell RNA-Seq Data | 2021 | Alessandri L.; Cordero F.; Beccuti M.; Arigoni M.; Calogero R.A. | |
| CONNECTOR, fitting and clustering of longitudinal data to reveal a new risk stratification system | 2023 | Pernice, Simone; Sirovich, Roberta; Grassi, Elena; Viviani, Marco; Ferri, Martina; Sassi, Francesco; Alessandrì, Luca; Tortarolo, Dora; Calogero, Raffaele A; Trusolino, Livio; Bertotti, Andrea; Beccuti, Marco; Olivero, Martina; Cordero, Francesca | |
| CREDO: a friendly Customizable, REproducible, DOcker file generator for bioinformatics applications | 2024 | Alessandri, Simone; Ratto, Maria L.; Rabellino, Sergio; Piacenti, Gabriele; Contaldo, Sandro Gepiro; Pernice, Simone; Beccuti, Marco; Calogero, Raffaele A.; Alessandri, Luca | |
| Differential expression analysis in single-cell transcriptomics | 2019 | Alessandri L.; Arigoni M.; Calogero R. | |
| Epigenetic changes by EZH2 inhibition increase translocations in B cells with high AID activity or DNA repair deficiency | 2025 | Tao, Jianli; Alessandri, Luca; Gasparetto, Alessandro; Zhao, Lijuan; Zhang, Xuefei; Alt, Frederick W.; Chiarle, Roberto | |
| FairFlow: A transparency-first framework for verifiable and reproducible bioinformatics | 2026 | D'Onofrio, Agata; Martelli, Eliseo; Alessandri, Maurizio; Bucatariu, Sebastian; Contaldo, Sandro Gepiro; Ratto, Maria Luisa; Tao, Jianli; Nuvolari, Beatrice; Castellano, Isabella; Loiacono, Andrea; Bianchi, Sara; Arigoni, Maddalena; Bertero, Alessandro; Balmas, Elisa; Chiarle, Roberto; Alessandri, Luca | |
| Functional-Feature-Based Data Reduction Using Sparsely Connected Autoencoders | 2023 | Alessandri, Luca; Calogero, Raffaele A | |
| GPTBioInsightor—leveraging large language models for transparent scRAN-seq cell type annotations | 2026 | Shenghui Huang, Berina Sabanovic, Yuzhong Peng, Quan Zheng, Luca Alessandrì, Christopher Heeschen | |
| Identifying Gene Markers Associated with Cell Subpopulations | 2023 | Ratto, Maria Luisa; Alessandri, Luca | |
| Interleukin-1 receptor-associated kinase 1 controls chemoresistance and immuno-killing in non-small cell lung cancer | 2026 | Digiovanni, Sabrina; Giannotta, Claudia; Alessandri, Luca; Fontana, Simona; Meoli, Angelo; Bironzo, Paolo; Merlini, Alessandra; Doronzo, Gabriella; Sushant, Parab; Balmas, Elisa; Akman, Muhlis; Kopecka, Joanna; Arigoni, Maddalena; Napoli, Francesca; Wens, Julia; Tarallo, Samuele; Bertero, Alessandro; Guglielmo, Stefano; Rolando, Barbara; Palma, Davide; Righi, Luisella; Massaia, Massimo; Calogero, Raffaele; Bussolino, Federico; Novello, Silvia; Scagliotti, Giorgio Vittorio; Salaroglio, Iris Chiara; Riganti, Chiara | |
| Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service | 2021 | Tangaro M.A.; Mandreoli P.; Chiara M.; Donvito G.; Antonacci M.; Parisi A.; Bianco A.; Romano A.; Bianchi D.M.; Cangelosi D.; Uva P.; Molineris I.; Nosi V.; Calogero R.A.; Alessandri L.; Pedrini E.; Mordenti M.; Bonetti E.; Sangiorgi L.; Pesole G.; Zambelli F. | |
| MET Exon 14 Skipping: A Case Study for the Detection of Genetic Variants in Cancer Driver Genes by Deep Learning | 2021 | Nosi, Vladimir; Luca, Alessandrì; Milan, Melissa; Arigoni, Maddalena; Benvenuti, Silvia; Cacchiarelli, Davide; Cesana, Marcella; Riccardo, Sara; Di Filippo, Lucio; Cordero, Francesca; Beccuti, Marco; Comoglio, Paolo M.; Calogero, Raffaele A. | |
| Molecular and functional characterization of urine-derived podocytes from patients with Alport syndrome | 2020 | Iampietro C.; Bellucci L.; Arcolino F.O.; Arigoni M.; Alessandrì L.; Gomez Y.; Papadimitriou E.; Calogero R.A.; Cocchi E.; Van Den Heuvel L.; Levtchenko E.; Bussolati B. | |
| rCASC: reproducible classification analysis of single-cell sequencing data | 2019 | Alessandrì, Luca; Cordero, Francesca; Beccuti, Marco; Arigoni, Maddalena; Olivero, Martina; Romano, Greta; Rabellino, Sergio; Licheri, Nicola; De Libero, Gennaro; Pace, Luigia; Calogero, Raffaele A | |
| Reproducible bioinformatics project: A community for reproducible bioinformatics analysis pipelines | 2018 | Neha Kulkarni, Luca Alessandrì, Riccardo Panero, Maddalena Arigoni, Martina Olivero, Giulio Ferrero, Francesca Cordero, Marco Beccuti, Raffaele A. Calogero | |
| Reproducible Classification and Analysis for Single Cell, rCASC | 2020 | - | |
| Semaphorin3A induces fibroblast polarization towards an antitumor phenotype in pancreatic ductal adenocarcinoma | 2025 | Carina Florina Cojocaru, Serena Brundu, Nicolò Bertalmio, Jessica Erriquez, Roberta Porporato, Maddalena Arigoni, Luca Alessandrì, Giuseppe R. Diaferia, Pierluigi Di Chiaro, Raffaele Calogero, Martina Olivero, Enrico Giraudo |