Archivio Istituzionale della RicercaPACIELLO, GIULIA
geneEX a novel tool to assess differential expression from gene and exon sequencing data
2018 Scicolone, ORAZIO MARIA; Paciello, Giulia; Ficarra, Elisa
MDM2 and Aurora Kinase a Contribute to SETD2 Loss of Function in Advanced Systemic Mastocytosis: Implications for Pathogenesis and Treatment
2018 Mancini, Manuela; Monaldi, Cecilia; De Santis, Sara; Papayannidis, Cristina; Rondoni, Michela; Bavaro, Luana; Martelli, Margherita; Maria Chiara, Abbenante; Curti, Antonio; Ficarra, Elisa; Paciello, Giulia; Chiara Fontana, Maria; Zanotti, Roberta; Bonifacio, Massimiliano; Scaffidi, Luigi; Pagano, Livio; Criscuolo, Marianna; Albano, Francesco; Ciceri, Fabio; Elena, Chiara; Tosi, Patrizia; Delledonne, Massimo; Avanzato, Carla; Xumerle, Luciano; Valent, Peter; Martinelli, GIOVANNI ATTILIO; Cavo, Michele; Soverini, Simona
RALE051: a novel established cell line of sporadic Burkitt lymphoma
2018 L’Abbate, Alberto; Iacobucci, Ilaria; Lonoce, Angelo; Turchiano, Antonella; Ficarra, Elisa; Paciello, Giulia; Cattina, Federica; Ferrari, Anna; Imbrogno, Enrica; Agostinelli, Claudio; Zinzani, Pierluigi; Martinelli, Giovanni; Derenzini, Enrico; Storlazzi, Clelia Tiziana
Bioinformatics methods and tools for identifying disease-associated B-cell populations, miRNA patterns and gene fusions in RNA-Seq data
2017 Paciello, Giulia
FuGePrior: A novel gene fusion prioritization algorithm based on accurate fusion structure analysis in cancer RNA-seq samples
2017 Paciello, Giulia; Ficarra, Elisa
isomiR-SEA: miRNA and isomiR expression level detection in seven RNA-Seq datasets
2017 Urgese, Gianvito; Paciello, Giulia; Macii, Enrico; Acquaviva, Andrea; Ficarra, Elisa
A COMBINED APPROACH TO DETECT RARE FUSION EVENTS IN ACUTE MYELOID LEUKEMIA
2016 A., Padella; G., Simonetti; Paciello, Giulia; A., Ferrari; E., Zago; C., Baldazzi; V., Guadagnuolo; C., Papayannidis; V., Robustelli; E., Imbrogno; N., Testoni; M., Cavo; M., Delledonne; I., Iacobucci; Ct, Storlazzi; Ficarra, Elisa; G., Martinelli
Detection of rearranged light chain sequences by RNA-Seq in B-cell lymphomas and reactive lymphadenopathies
2016 Paciello, Giulia; Pighi, C.; Ficarra, Elisa; Zamo', A.
Directly linking non-coding SNPs to changes in epithelial enhancer activity
2016 Jacobs, J.; Christiaens, ; V, .; Potier, ; D, .; Svetlichnyy, ; D, .; Romanelli, ; L, .; Taskiran, Ihsan; I, .; Paciello, Giulia; G, .; Aerts,
isomiR-SEA: An RNA-Seq analysis tool for miRNAs/isomiRs expression level profiling and miRNA-mRNA interaction sites evaluation
2016 Urgese, Gianvito; Paciello, Giulia; Acquaviva, Andrea; Ficarra, Elisa
Novel fusion transcripts identified by RNAseq cooperate with somatic mutations in the pathogenesis of acute myeloid leukemia
2016 Antonella, Padella; Giorgia, Simonetti; Anna, Ferrari; Paciello, Giulia; Elisa, Zago; Carmen, Baldazzi; Viviana, Guadagnuolo; Cristina, Papayannidis; Valentina, Robustelli; Enrica, Imbrogno; Nicoletta, Testoni; Massimo, Delledonne; Ilaria, Iacobucci; Tiziana Clelia, Storlazzi; Ficarra, Elisa; Pier Luigi, Lollini; Giovanni, Martinelli
The Genomic and Transcriptomic Landscape of Systemic Mastocytosis
2016 Simona, Soverini; Caterina De, Benedittis; Michela, Rondoni; Cristina, Papayannidis; Ficarra, Elisa; Paciello, Giulia; Marco, Manfrini; Manuela, Mancini; Roberta, Zanotti; Luigi, Scaffidi; Giorgina, Specchia; Francesco, Albano; Serena, Merante; Chiara, Elena; Livio, Pagano; Domenica, Gangemi; Patrizia, Tosi; Luana, Bavaro
On the relevance of a complete characterisation of miRNAs, isomiRs and miRNA-mRNA interaction sites through miRNA-specific alignment tools
2015 Urgese, Gianvito; Paciello, Giulia; Ficarra, Elisa; Macii, Enrico; Acquaviva, Andrea
RNA Sequencing Reveals Novel and Rare Fusion Transcripts in Acute Myeloid Leukemia
2015 Padella, A.; Simonetti, G.; Paciello, Giulia; Ferrari, A.; Zago, E.; Baldazzi, C.; Guadagnuolo, V.; Papayannidis, C.; Robustelli, V.; Imbrogno, E.; Testoni, N.; Musuraca, G.; Soverini, S.; Delledonne, M.; Iacobucci, I.; Storlazzi, C. T.; Ficarra, Elisa; Martinelli, G.
VDJSeq-Solver: In Silico V(D)J Recombination Detection tool
2015 Paciello, Giulia; Acquaviva, Andrea; Chiara, Pighi; Alberto, Ferrarini; Macii, Enrico; Alberto, Zamò; Ficarra, Elisa
A Novel Pipeline for Identification and Prioritization of Gene Fusions in Patient-derived Xenografts of Metastatic Colorectal Cancer
2014 Paciello, Giulia; Acquaviva, Andrea; Consalvo, Petti; Claudio, Isella; Enzo, Medico; Ficarra, Elisa
Dynamic Gap Selector: A Smith Waterman Sequence Alignment Algorithm with Affine Gap Model Optimisation
2014 Urgese, Gianvito; Paciello, Giulia; Acquaviva, Andrea; Ficarra, Elisa; Graziano, Mariagrazia; Zamboni, Maurizio
miR-SEA: miRNA Seed Extension based Aligner Pipeline for NGS Expression Level Extraction
2014 Urgese, Gianvito; Paciello, Giulia; Isella, C.; Medico, E.; Macii, Enrico; Ficarra, Elisa; Acquaviva, Andrea
Next-Generation Sequencing Analysis Revealed That BCL11B Chromosomal Translocation Cooperates with Point Mutations in the Pathogenesis of Acute Myeloid Leukemia
2014 Antonella, Padella; Giorgia, Simonetti; Viviana, Guadagnuolo; Emanuela, Ottaviani; Anna, Ferrari; Elisa, Zago; Francesca, Griggio; Marianna, Garonzi; Paciello, Giulia; Simona, Bernardi; Carmen, Baldazzi; Cristina, Papayannidis; Maria Chiara, Abbenante; Francesca, Volpato; Raffaele, Calogero; Nicoletta, Testoni; Ficarra, Elisa; Alberto, Ferrarini; Massimo, Delledonne; Ilaria, Iacobucci; Giovanni, Martinelli
A novel pipeline for V(D)J junction identification using RNA-Seq paired-end reads
2013 Paciello, Giulia; Ficarra, Elisa; Alberto, Zamò; Chiara, Pighi; Carmelo, Foti; Abate, Francesco; Macii, Enrico; Acquaviva, Andrea
| Citazione | Data di pubblicazione | Autori | File |
|---|---|---|---|
| geneEX a novel tool to assess differential expression from gene and exon sequencing data / Scicolone, ORAZIO MARIA; Paciello, Giulia; Ficarra, Elisa. - 3:(2018), pp. 174-181. ( 9th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2018 - Part of 11th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2018 Funchal - Madeira, Portugal 19-21 January, 2018). | 1-gen-2018 | SCICOLONE, ORAZIO MARIAPaciello, GiuliaFicarra, Elisa | geneEX.pdf |
| MDM2 and Aurora Kinase a Contribute to SETD2 Loss of Function in Advanced Systemic Mastocytosis: Implications for Pathogenesis and Treatment / Mancini, M., Monaldi, C., De Santis, S., Papayannidis, C., Rondoni, M., Bavaro, L., Martelli, M., Maria Chiara, A., Curti, A., Ficarra, E., Paciello, G., Chiara Fontana, M., Zanotti, R., Bonifacio, M., Scaffidi, L., Pagano, L., Criscuolo, M., Albano, F., Ciceri, F., Elena, C., et al.. - In: BLOOD. - ISSN 0006-4971. - ELETTRONICO. - 132:1(2018), pp. 1779-1779. [10.1182/blood-2018-99-113278] | 1-gen-2018 | Elisa FicarraGiulia PacielloGiovanni Martinelli + | - |
| RALE051: a novel established cell line of sporadic Burkitt lymphoma / L’Abbate, Alberto; Iacobucci, Ilaria; Lonoce, Angelo; Turchiano, Antonella; Ficarra, Elisa; Paciello, Giulia; Cattina, Federica; Ferrari, Anna; Imbrogno, Enrica; Agostinelli, Claudio; Zinzani, Pierluigi; Martinelli, Giovanni; Derenzini, Enrico; Storlazzi, Clelia Tiziana. - In: LEUKEMIA & LYMPHOMA. - ISSN 1042-8194. - ELETTRONICO. - 59:5(2018), pp. 1252-1255. [10.1080/10428194.2017.1372580] | 1-gen-2018 | Ficarra, ElisaPaciello, Giulia + | - |
| Bioinformatics methods and tools for identifying disease-associated B-cell populations, miRNA patterns and gene fusions in RNA-Seq data / Paciello, Giulia. - (2017). | 1-gen-2017 | PACIELLO, GIULIA | - |
| FuGePrior: A novel gene fusion prioritization algorithm based on accurate fusion structure analysis in cancer RNA-seq samples / Paciello, G., Ficarra, E.. - In: BMC BIOINFORMATICS. - ISSN 1471-2105. - 18:1(2017), pp. 1-12. [10.1186/s12859-016-1450-6] | 1-gen-2017 | PACIELLO, GIULIAFICARRA, ELISA | 12859_2016_Article_1450_FuGePrior.pdf |
| isomiR-SEA: miRNA and isomiR expression level detection in seven RNA-Seq datasets / Urgese, Gianvito; Paciello, Giulia; Macii, Enrico; Acquaviva, Andrea; Ficarra, Elisa. - ELETTRONICO. - (2017). ( Joint 25th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) and 16th European Conference on Computational Biology (ECCB) 2017 Prague 21-25 July 2017) [10.7490/f1000research.1114698.1]. | 1-gen-2017 | URGESE, GIANVITOPACIELLO, GIULIAMACII, EnricoACQUAVIVA, ANDREAFICARRA, ELISA | f1000research-173536_post_print.pdf |
| A COMBINED APPROACH TO DETECT RARE FUSION EVENTS IN ACUTE MYELOID LEUKEMIA / A., P., G., S., Paciello, G., A., F., E., Z., C., B., V., G., C., P., V., R., E., I., N., T., M., C., M., D., I., I., Ct, S., Ficarra, E., G., M.. - In: HAEMATOLOGICA. - ISSN 0390-6078. - ELETTRONICO. - 101:(2016), pp. 666-667. (21st Congress Of The European Hematology Association Copenhagen, Denmark June 9–12, 2016). | 1-gen-2016 | PACIELLO, GIULIAFICARRA, ELISA + | - |
| Detection of rearranged light chain sequences by RNA-Seq in B-cell lymphomas and reactive lymphadenopathies / Paciello, Giulia; Pighi, C.; Ficarra, Elisa; Zamo', A.. - (2016). ( EAHP 2016: 18th Meeting of the European Association for Hemathopathology Basilea 3-8 Sept. 2016). | 1-gen-2016 | PACIELLO, GIULIAFICARRA, ELISA + | - |
| Directly linking non-coding SNPs to changes in epithelial enhancer activity / Jacobs, J., Christiaens, ., V, ., Potier, ., D, ., Svetlichnyy, ., D, ., Romanelli, ., L, ., Taskiran, I., I, ., Paciello, G., G, ., Aerts,. - (2016). (EMBL Transcription and Chromatin, Edition 12 Heidelberg 27-30 Aug 2016). | 1-gen-2016 | PACIELLO, GIULIA + | - |
| isomiR-SEA: An RNA-Seq analysis tool for miRNAs/isomiRs expression level profiling and miRNA-mRNA interaction sites evaluation / Urgese, Gianvito; Paciello, Giulia; Acquaviva, Andrea; Ficarra, Elisa. - In: BMC BIOINFORMATICS. - ISSN 1471-2105. - ELETTRONICO. - 17:148(2016). [10.1186/s12859-016-0958-0] | 1-gen-2016 | URGESE, GIANVITOPACIELLO, GIULIAACQUAVIVA, ANDREAFICARRA, ELISA | s12859-016-0958-0.pdf |
| Novel fusion transcripts identified by RNAseq cooperate with somatic mutations in the pathogenesis of acute myeloid leukemia / Antonella, P., Giorgia, S., Anna, F., Paciello, G., Elisa, Z., Carmen, B., Viviana, G., Cristina, P., Valentina, R., Enrica, I., Nicoletta, T., Massimo, D., Ilaria, I., Tiziana Clelia, S., Ficarra, E., Pier Luigi, L., Giovanni, M.. - In: CANCER RESEARCH. - ISSN 1538-7445. - 76:14(2016), pp. 113-113. [10.1158/1538-7445.AM2016-113] | 1-gen-2016 | PACIELLO, GIULIAFICARRA, ELISA + | - |
| The Genomic and Transcriptomic Landscape of Systemic Mastocytosis / Simona, S., Caterina De, B., Michela, R., Cristina, P., Ficarra, E., Paciello, G., Marco, M., Manuela, M., Roberta, Z., Luigi, S., Giorgina, S., Francesco, A., Serena, M., Chiara, E., Livio, P., Domenica, G., Patrizia, T., Luana, B.. - In: BLOOD. - ISSN 0006-4971. - 128:22(2016). [10.1182/blood.V128.22.3136.3136] | 1-gen-2016 | FICARRA, ELISAPACIELLO, GIULIA + | - |
| On the relevance of a complete characterisation of miRNAs, isomiRs and miRNA-mRNA interaction sites through miRNA-specific alignment tools / Urgese, Gianvito; Paciello, Giulia; Ficarra, Elisa; Macii, Enrico; Acquaviva, Andrea. - ELETTRONICO. - (2015). ( RNAi 2015: Short & Long Non-coding RNAs, 10th International Conference & Exhibition Oxford (UK) 24-26 March 2015). | 1-gen-2015 | URGESE, GIANVITOPACIELLO, GIULIAFICARRA, ELISAMACII, EnricoACQUAVIVA, ANDREA | Urgese-RNAi15_2.pdf |
| RNA Sequencing Reveals Novel and Rare Fusion Transcripts in Acute Myeloid Leukemia / Padella, A., Simonetti, G., Paciello, G., Ferrari, A., Zago, E., Baldazzi, C., Guadagnuolo, V., Papayannidis, C., Robustelli, V., Imbrogno, E., Testoni, N., Musuraca, G., Soverini, S., Delledonne, M., Iacobucci, I., Storlazzi, C.T., Ficarra, E., Martinelli, G.. - In: BLOOD. - ISSN 0006-4971. - 126:(2015), pp. 3627-3627. | 1-gen-2015 | PACIELLO, GIULIAFICARRA, ELISA + | - |
| VDJSeq-Solver: In Silico V(D)J Recombination Detection tool / Paciello, G., Acquaviva, A., Chiara, P., Alberto, F., Macii, E., Alberto, Z., Ficarra, E.. - In: PLOS ONE. - ISSN 1932-6203. - ELETTRONICO. - 10:3(2015), pp. 1-26. [10.1371/journal.pone.0118192] | 1-gen-2015 | PACIELLO, GIULIAACQUAVIVA, ANDREAMACII, EnricoFICARRA, ELISA + | VDJSeq-Solver.pdf |
| A Novel Pipeline for Identification and Prioritization of Gene Fusions in Patient-derived Xenografts of Metastatic Colorectal Cancer / Paciello, Giulia; Acquaviva, Andrea; Consalvo, Petti; Claudio, Isella; Enzo, Medico; Ficarra, Elisa. - (2014), pp. 142-148. ( BIOSTEC 2014 Eseo, Angers, Loire Valley, France 3-6 March 2014) [10.5220/0004799401420148]. | 1-gen-2014 | PACIELLO, GIULIAACQUAVIVA, ANDREAFICARRA, ELISA + | - |
| Dynamic Gap Selector: A Smith Waterman Sequence Alignment Algorithm with Affine Gap Model Optimisation / Urgese, G., Paciello, G., Acquaviva, A., Ficarra, E., Graziano, M., Zamboni, M.. - STAMPA. - 2:(2014), pp. 1347-1358. (2nd International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2014) Granada April 7-9 2014). | 1-gen-2014 | URGESE, GIANVITOPACIELLO, GIULIAACQUAVIVA, ANDREAFICARRA, ELISAGRAZIANO, MARIAGRAZIAZAMBONI, Maurizio | IWBBIO_2014_paper_143.pdf |
| miR-SEA: miRNA Seed Extension based Aligner Pipeline for NGS Expression Level Extraction / Urgese, G., Paciello, G., Isella, C., Medico, E., Macii, E., Ficarra, E., Acquaviva, A.. - STAMPA. - 2:(2014), pp. 1015-1026. (2nd International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2014) Granada April 7-9 2014). | 1-gen-2014 | URGESE, GIANVITOPACIELLO, GIULIAMACII, EnricoFICARRA, ELISAACQUAVIVA, ANDREA + | IWBBIO_2014_paper_105.pdf |
| Next-Generation Sequencing Analysis Revealed That BCL11B Chromosomal Translocation Cooperates with Point Mutations in the Pathogenesis of Acute Myeloid Leukemia / Antonella, P., Giorgia, S., Viviana, G., Emanuela, O., Anna, F., Elisa, Z., Francesca, G., Marianna, G., Paciello, G., Simona, B., Carmen, B., Cristina, P., Maria Chiara, A., Francesca, V., Raffaele, C., Nicoletta, T., Ficarra, E., Alberto, F., Massimo, D., Ilaria, I., et al.. - In: BLOOD. - ISSN 0006-4971. - ELETTRONICO. - 124:21(2014). | 1-gen-2014 | PACIELLO, GIULIAFICARRA, ELISA + | - |
| A novel pipeline for V(D)J junction identification using RNA-Seq paired-end reads / Paciello, G., Ficarra, E., Alberto, Z., Chiara, P., Carmelo, F., Abate, F., Macii, E., Acquaviva, A.. - STAMPA. - (2013). (Bioinformatics 2013, International Conference on Bioinformatics Models, Methods and Algorithms Barcelona, Spain 11-14 February 2013). | 1-gen-2013 | PACIELLO, GIULIAFICARRA, ELISAABATE, FRANCESCOMACII, EnricoACQUAVIVA, ANDREA + | Biostec_camera_ready.pdf |