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Year Number of Results
2000 3
2001 2
2002 3
2003 2
2004 1
2005 5
2006 4
2007 3
2008 2
2009 5
2010 6
2011 6
2012 5
2013 8
2014 7
2015 8
2016 14
2017 3
2018 6
2019 9
2020 5
2021 8
2022 8
2023 5
2024 4
2025 3
2026 2

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127 results

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Page 1
Telethon Undiagnosed Disease Program: Structured approach to solving rare childhood-onset genetic diseases.
Torella A, Morleo M, Spampanato C, Castello R, Zanobio M, Piluso G, Di Letto P, Onore ME, Rahman SI, Musacchia F, Pinelli M, Vitiello G, De Riso G, Selicorni A, Mariani M, Daolio C, Capra V, Scala M, Nardecchia F, Galosi S, Mastrangelo M, Manti F, Milani D, Romano C, Greco D, Ciaccio C, D'Arrigo S, De Laurentiis A, Coppola A, Zollino M, Pasquetti D, L'Erario FF, Tummolo A, Santoro C, Garavelli L, Marini C, Bigoni S, Tirozzi A, Cetrangolo V, Parenti G, Di Bernardo D, Peron A, Maitz S, Accogli A, Cappuccio G, Banfi S, Casari G, Ballabio A, Brunetti-Pierri N, Nigro V; Telethon Undiagnosed Disease Study group. Torella A, et al. Among authors: di bernardo d. Genet Med Open. 2026 Mar 25;4:104394. doi: 10.1016/j.gimo.2026.104394. eCollection 2026. Genet Med Open. 2026. PMID: 42016445 Free PMC article.
The role of gene-environment interactions in endocrine-sensitive life stages for shaping mental health: focus on the RE-MEND project.
Abualia K, Cediel-Ulloa A, Allsopp P, Augustine A, Bergquist J, Bornehag CG, Broberg K, Caporale N, Comasco E, di Bernardo D, Domingues R, Drakvik E, Gennings C, Gingnell M, Globisch D, Kippler M, McSorley E, Mulhern M, Motwani HV, Nalvarte I, Oudin A, Rahman A, Reifegerste D, Rein T, Skalkidou A, Strain JJ, Testa G, Tsiukalo L, van Wijngaarden E, Yeates A, Rüegg J, Antczak P. Abualia K, et al. Among authors: di bernardo d. Front Psychiatry. 2026 Feb 20;17:1738584. doi: 10.3389/fpsyt.2026.1738584. eCollection 2026. Front Psychiatry. 2026. PMID: 41799821 Free PMC article. Review.
Multi-OMICs analysis on tridimensional fibroblast spheroids to model vascular Ehlers-Danlos syndrome pathogenesis.
Micale L, Di Muro E, De Cegli R, Tumaini B, Capuozzo A, Bernardi P, Morlino S, Fusco C, Nardella G, Mormone E, Vaccaro L, Del Prete E, Giachino D, Giuliani M, Leoni C, Mercadante F, Moroni A, Piscopo C, Zollino M, Cacchiarelli D, Sbarbati A, Medina DL, Di Bernardo D, Castori M. Micale L, et al. Among authors: di bernardo d. Biochim Biophys Acta Mol Basis Dis. 2025 Aug;1871(6):167896. doi: 10.1016/j.bbadis.2025.167896. Epub 2025 May 8. Biochim Biophys Acta Mol Basis Dis. 2025. PMID: 40345454
Sestrin2 drives ER-phagy in response to protein misfolding.
De Leonibus C, Maddaluno M, Ferriero R, Besio R, Cinque L, Lim PJ, Palma A, De Cegli R, Gagliotta S, Montefusco S, Iavazzo M, Rohrbach M, Giunta C, Polishchuk E, Medina DL, Di Bernardo D, Forlino A, Piccolo P, Settembre C. De Leonibus C, et al. Among authors: di bernardo d. Dev Cell. 2024 Aug 19;59(16):2035-2052.e10. doi: 10.1016/j.devcel.2024.07.004. Epub 2024 Aug 1. Dev Cell. 2024. PMID: 39094564 Free PMC article.
Computational drug prediction in hepatoblastoma by integrating pan-cancer transcriptomics with pharmacological response.
Failli M, Demir S, Del Río-Álvarez Á, Carrillo-Reixach J, Royo L, Domingo-Sàbat M, Childs M, Maibach R, Alaggio R, Czauderna P, Morland B, Branchereau S, Cairo S, Kappler R, Armengol C, di Bernardo D. Failli M, et al. Among authors: di bernardo d. Hepatology. 2024 Jul 1;80(1):55-68. doi: 10.1097/HEP.0000000000000601. Epub 2023 Sep 20. Hepatology. 2024. PMID: 37729391 Free PMC article.
Effective methods for bulk RNA-seq deconvolution using scnRNA-seq transcriptomes.
Cobos FA, Panah MJN, Epps J, Long X, Man TK, Chiu HS, Chomsky E, Kiner E, Krueger MJ, di Bernardo D, Voloch L, Molenaar J, van Hooff SR, Westermann F, Jansky S, Redell ML, Mestdagh P, Sumazin P. Cobos FA, et al. Among authors: di bernardo d. Genome Biol. 2023 Aug 1;24(1):177. doi: 10.1186/s13059-023-03016-6. Genome Biol. 2023. PMID: 37528411 Free PMC article.
Complete atrioventricular septal defect: Modified 2-patch technique.
Pfister R, Myers P, Hosseinpour AR, Kirsch M, Nowacka A, di Bernardo DB, Prêtre R. Pfister R, et al. Among authors: di bernardo db. Multimed Man Cardiothorac Surg. 2022 Dec 22;2022. doi: 10.1510/mmcts.2022.103. Multimed Man Cardiothorac Surg. 2022. PMID: 36546680 Free article.
Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
Grapotte M, Saraswat M, Bessière C, Menichelli C, Ramilowski JA, Severin J, Hayashizaki Y, Itoh M, Tagami M, Murata M, Kojima-Ishiyama M, Noma S, Noguchi S, Kasukawa T, Hasegawa A, Suzuki H, Nishiyori-Sueki H, Frith MC; FANTOM consortium; Chatelain C, Carninci P, de Hoon MJL, Wasserman WW, Bréhélin L, Lecellier CH. Grapotte M, et al. Nat Commun. 2022 Mar 1;13(1):1200. doi: 10.1038/s41467-022-28758-y. Nat Commun. 2022. PMID: 35232988 Free PMC article. No abstract available.
Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network.
Grapotte M, Saraswat M, Bessière C, Menichelli C, Ramilowski JA, Severin J, Hayashizaki Y, Itoh M, Tagami M, Murata M, Kojima-Ishiyama M, Noma S, Noguchi S, Kasukawa T, Hasegawa A, Suzuki H, Nishiyori-Sueki H, Frith MC; FANTOM consortium; Chatelain C, Carninci P, de Hoon MJL, Wasserman WW, Bréhélin L, Lecellier CH. Grapotte M, et al. Nat Commun. 2021 Jun 2;12(1):3297. doi: 10.1038/s41467-021-23143-7. Nat Commun. 2021. PMID: 34078885 Free PMC article.
Automatic identification of small molecules that promote cell conversion and reprogramming.
Napolitano F, Rapakoulia T, Annunziata P, Hasegawa A, Cardon M, Napolitano S, Vaccaro L, Iuliano A, Wanderlingh LG, Kasukawa T, Medina DL, Cacchiarelli D, Gao X, di Bernardo D, Arner E. Napolitano F, et al. Among authors: di bernardo d. Stem Cell Reports. 2021 May 11;16(5):1381-1390. doi: 10.1016/j.stemcr.2021.03.028. Epub 2021 Apr 22. Stem Cell Reports. 2021. PMID: 33891873 Free PMC article.
Fat Induces Glucose Metabolism in Nontransformed Liver Cells and Promotes Liver Tumorigenesis.
Broadfield LA, Duarte JAG, Schmieder R, Broekaert D, Veys K, Planque M, Vriens K, Karasawa Y, Napolitano F, Fujita S, Fujii M, Eto M, Holvoet B, Vangoitsenhoven R, Fernandez-Garcia J, Van Elsen J, Dehairs J, Zeng J, Dooley J, Rubio RA, van Pelt J, Grünewald TGP, Liston A, Mathieu C, Deroose CM, Swinnen JV, Lambrechts D, di Bernardo D, Kuroda S, De Bock K, Fendt SM. Broadfield LA, et al. Among authors: di bernardo d. Cancer Res. 2021 Apr 15;81(8):1988-2001. doi: 10.1158/0008-5472.CAN-20-1954. Epub 2021 Mar 9. Cancer Res. 2021. PMID: 33687947 Free PMC article.
Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)1.
Klionsky DJ, Abdel-Aziz AK, Abdelfatah S, Abdellatif M, Abdoli A, Abel S, Abeliovich H, Abildgaard MH, Abudu YP, Acevedo-Arozena A, Adamopoulos IE, Adeli K, Adolph TE, Adornetto A, Aflaki E, Agam G, Agarwal A, Aggarwal BB, Agnello M, Agostinis P, Agrewala JN, Agrotis A, Aguilar PV, Ahmad ST, Ahmed ZM, Ahumada-Castro U, Aits S, Aizawa S, Akkoc Y, Akoumianaki T, Akpinar HA, Al-Abd AM, Al-Akra L, Al-Gharaibeh A, Alaoui-Jamali MA, Alberti S, Alcocer-Gómez E, Alessandri C, Ali M, Alim Al-Bari MA, Aliwaini S, Alizadeh J, Almacellas E, Almasan A, Alonso A, Alonso GD, Altan-Bonnet N, Altieri DC, Álvarez ÉMC, Alves S, Alves da Costa C, Alzaharna MM, Amadio M, Amantini C, Amaral C, Ambrosio S, Amer AO, Ammanathan V, An Z, Andersen SU, Andrabi SA, Andrade-Silva M, Andres AM, Angelini S, Ann D, Anozie UC, Ansari MY, Antas P, Antebi A, Antón Z, Anwar T, Apetoh L, Apostolova N, Araki T, Araki Y, Arasaki K, Araújo WL, Araya J, Arden C, Arévalo MA, Arguelles S, Arias E, Arikkath J, Arimoto H, Ariosa AR, Armstrong-James D, Arnauné-Pelloquin L, Aroca A, Arroyo DS, Arsov I, Artero R, Asaro DML, Aschner M, Ashrafizadeh M, Ashur-Fabian O, Atanasov AG, Au AK, Auberger P, Auner HW, Aurelian L, Autelli R… See abstract for full author list ➔ Klionsky DJ, et al. Among authors: di bernardo d. Autophagy. 2021 Jan;17(1):1-382. doi: 10.1080/15548627.2020.1797280. Epub 2021 Feb 8. Autophagy. 2021. PMID: 33634751 Free PMC article.
ChipSeg: An Automatic Tool to Segment Bacterial and Mammalian Cells Cultured in Microfluidic Devices.
de Cesare I, Zamora-Chimal CG, Postiglione L, Khazim M, Pedone E, Shannon B, Fiore G, Perrino G, Napolitano S, di Bernardo D, Savery NJ, Grierson C, di Bernardo M, Marucci L. de Cesare I, et al. Among authors: di bernardo d. ACS Omega. 2021 Jan 19;6(4):2473-2476. doi: 10.1021/acsomega.0c03906. eCollection 2021 Feb 2. ACS Omega. 2021. PMID: 33553865 Free PMC article.
GADD34 is a modulator of autophagy during starvation.
Gambardella G, Staiano L, Moretti MN, De Cegli R, Fagnocchi L, Di Tullio G, Polletti S, Braccia C, Armirotti A, Zippo A, Ballabio A, De Matteis MA, di Bernardo D. Gambardella G, et al. Among authors: di bernardo d. Sci Adv. 2020 Sep 25;6(39):eabb0205. doi: 10.1126/sciadv.abb0205. Print 2020 Sep. Sci Adv. 2020. PMID: 32978159 Free PMC article.
Author Correction: Impaired mitophagy links mitochondrial disease to epithelial stress in methylmalonyl-CoA mutase deficiency.
Luciani A, Schumann A, Berquez M, Chen Z, Nieri D, Failli M, Debaix H, Festa BP, Tokonami N, Raimondi A, Cremonesi A, Carrella D, Forny P, Kölker S, Camassei FD, Diaz F, Moraes CT, Di Bernardo D, Baumgartner MR, Devuyst O. Luciani A, et al. Among authors: di bernardo d. Nat Commun. 2020 Apr 1;11(1):1719. doi: 10.1038/s41467-020-15565-6. Nat Commun. 2020. PMID: 32238804 Free PMC article.
Impaired mitophagy links mitochondrial disease to epithelial stress in methylmalonyl-CoA mutase deficiency.
Luciani A, Schumann A, Berquez M, Chen Z, Nieri D, Failli M, Debaix H, Festa BP, Tokonami N, Raimondi A, Cremonesi A, Carrella D, Forny P, Kölker S, Diomedi Camassei F, Diaz F, Moraes CT, Di Bernardo D, Baumgartner MR, Devuyst O. Luciani A, et al. Among authors: di bernardo d. Nat Commun. 2020 Feb 20;11(1):970. doi: 10.1038/s41467-020-14729-8. Nat Commun. 2020. PMID: 32080200 Free PMC article.
Predictive Signatures Inform the Effective Repurposing of Decitabine to Treat KRAS-Dependent Pancreatic Ductal Adenocarcinoma.
Mottini C, Tomihara H, Carrella D, Lamolinara A, Iezzi M, Huang JK, Amoreo CA, Buglioni S, Manni I, Robinson FS, Minelli R, Kang Y, Fleming JB, Kim MP, Bristow CA, Trisciuoglio D, Iuliano A, Del Bufalo D, Di Bernardo D, Melisi D, Draetta GF, Ciliberto G, Carugo A, Cardone L. Mottini C, et al. Among authors: di bernardo d. Cancer Res. 2019 Nov 1;79(21):5612-5625. doi: 10.1158/0008-5472.CAN-19-0187. Epub 2019 Sep 5. Cancer Res. 2019. PMID: 31492820
Comprehensive kinome NGS targeted expression profiling by KING-REX.
Carapezza G, Cusi C, Rizzo E, Raddrizzani L, Di Bella S, Somaschini A, Leone A, Lupi R, Mutarelli M, Nigro V, di Bernardo D, Magni P, Isacchi A, Bosotti R. Carapezza G, et al. Among authors: di bernardo d. BMC Genomics. 2019 Apr 23;20(1):307. doi: 10.1186/s12864-019-5676-3. BMC Genomics. 2019. PMID: 31014245 Free PMC article.
Glatiramer Acetate modulates ion channels expression and calcium homeostasis in B cell of patients with relapsing-remitting multiple sclerosis.
Criscuolo C, Cianflone A, Lanzillo R, Carrella D, Carissimo A, Napolitano F, de Cegli R, de Candia P, La Rocca C, Petrozziello T, Matarese G, Boscia F, Secondo A, Di Bernardo D, Brescia Morra V. Criscuolo C, et al. Among authors: di bernardo d. Sci Rep. 2019 Mar 12;9(1):4208. doi: 10.1038/s41598-018-38152-8. Sci Rep. 2019. PMID: 30862866 Free PMC article.
The Autophagy Inhibitor Spautin-1 Antagonizes Rescue of Mutant CFTR Through an Autophagy-Independent and USP13-Mediated Mechanism.
Pesce E, Sondo E, Ferrera L, Tomati V, Caci E, Scudieri P, Musante I, Renda M, Baatallah N, Servel N, Hinzpeter A, di Bernardo D, Pedemonte N, Galietta LJV. Pesce E, et al. Among authors: di bernardo d. Front Pharmacol. 2018 Dec 13;9:1464. doi: 10.3389/fphar.2018.01464. eCollection 2018. Front Pharmacol. 2018. PMID: 30618756 Free PMC article.
Induction of Nitric-Oxide Metabolism in Enterocytes Alleviates Colitis and Inflammation-Associated Colon Cancer.
Stettner N, Rosen C, Bernshtein B, Gur-Cohen S, Frug J, Silberman A, Sarver A, Carmel-Neiderman NN, Eilam R, Biton I, Pevsner-Fischer M, Zmora N, Brandis A, Bahar Halpern K, Mazkereth R, di Bernardo D, Brunetti-Pierri N, Premkumar MH, Dank G, Nagamani SCS, Jung S, Harmelin A, Erez A. Stettner N, et al. Among authors: di bernardo d. Cell Rep. 2018 May 15;23(7):1962-1976. doi: 10.1016/j.celrep.2018.04.053. Cell Rep. 2018. PMID: 29768197 Free PMC article.
gene2drug: a computational tool for pathway-based rational drug repositioning.
Napolitano F, Carrella D, Mandriani B, Pisonero-Vaquero S, Sirci F, Medina DL, Brunetti-Pierri N, di Bernardo D. Napolitano F, et al. Among authors: di bernardo d. Bioinformatics. 2018 May 1;34(9):1498-1505. doi: 10.1093/bioinformatics/btx800. Bioinformatics. 2018. PMID: 29236977 Free article.
PML-RARA-associated cooperating mutations belong to a transcriptional network that is deregulated in myeloid leukemias.
Ronchini C, Brozzi A, Riva L, Luzi L, Gruszka AM, Melloni GEM, Scanziani E, Dharmalingam G, Mutarelli M, Belcastro V, Lavorgna S, Rossi V, Spinelli O, Biondi A, Rambaldi A, Lo-Coco F, di Bernardo D, Pelicci PG. Ronchini C, et al. Among authors: di bernardo d. Leukemia. 2017 Sep;31(9):1975-1986. doi: 10.1038/leu.2016.386. Epub 2016 Dec 27. Leukemia. 2017. PMID: 28025581
Goblet Cell Hyperplasia Requires High Bicarbonate Transport To Support Mucin Release.
Gorrieri G, Scudieri P, Caci E, Schiavon M, Tomati V, Sirci F, Napolitano F, Carrella D, Gianotti A, Musante I, Favia M, Casavola V, Guerra L, Rea F, Ravazzolo R, Di Bernardo D, Galietta LJ. Gorrieri G, et al. Among authors: di bernardo d. Sci Rep. 2016 Oct 27;6:36016. doi: 10.1038/srep36016. Sci Rep. 2016. PMID: 27786259 Free PMC article.
Guest Editorial.
di Bernardo D. di Bernardo D. IET Syst Biol. 2016 Oct;10(5):167. doi: 10.1049/iet-syb.2016.0038. IET Syst Biol. 2016. PMID: 27762230 Free PMC article. No abstract available.
Computational drugs repositioning identifies inhibitors of oncogenic PI3K/AKT/P70S6K-dependent pathways among FDA-approved compounds.
Carrella D, Manni I, Tumaini B, Dattilo R, Papaccio F, Mutarelli M, Sirci F, Amoreo CA, Mottolese M, Iezzi M, Ciolli L, Aria V, Bosotti R, Isacchi A, Loreni F, Bardelli A, Avvedimento VE, di Bernardo D, Cardone L. Carrella D, et al. Among authors: di bernardo d. Oncotarget. 2016 Sep 13;7(37):58743-58758. doi: 10.18632/oncotarget.11318. Oncotarget. 2016. PMID: 27542212 Free PMC article.
Autophagosome-lysosome fusion triggers a lysosomal response mediated by TLR9 and controlled by OCRL.
De Leo MG, Staiano L, Vicinanza M, Luciani A, Carissimo A, Mutarelli M, Di Campli A, Polishchuk E, Di Tullio G, Morra V, Levtchenko E, Oltrabella F, Starborg T, Santoro M, Di Bernardo D, Devuyst O, Lowe M, Medina DL, Ballabio A, De Matteis MA. De Leo MG, et al. Among authors: di bernardo d. Nat Cell Biol. 2016 Aug;18(8):839-850. doi: 10.1038/ncb3386. Epub 2016 Jul 11. Nat Cell Biol. 2016. PMID: 27398910 Free PMC article.
An atlas of gene expression and gene co-regulation in the human retina.
Pinelli M, Carissimo A, Cutillo L, Lai CH, Mutarelli M, Moretti MN, Singh MV, Karali M, Carrella D, Pizzo M, Russo F, Ferrari S, Ponzin D, Angelini C, Banfi S, di Bernardo D. Pinelli M, et al. Among authors: di bernardo d. Nucleic Acids Res. 2016 Jul 8;44(12):5773-84. doi: 10.1093/nar/gkw486. Epub 2016 May 27. Nucleic Acids Res. 2016. PMID: 27235414 Free PMC article.
Unravelling druggable signalling networks that control F508del-CFTR proteostasis.
Hegde RN, Parashuraman S, Iorio F, Ciciriello F, Capuani F, Carissimo A, Carrella D, Belcastro V, Subramanian A, Bounti L, Persico M, Carlile G, Galietta L, Thomas DY, Di Bernardo D, Luini A. Hegde RN, et al. Among authors: di bernardo d. Elife. 2015 Dec 23;4:e10365. doi: 10.7554/eLife.10365. Elife. 2015. PMID: 26701908 Free PMC article.
Blood transcriptomics of drug-naïve sporadic Parkinson's disease patients.
Calligaris R, Banica M, Roncaglia P, Robotti E, Finaurini S, Vlachouli C, Antonutti L, Iorio F, Carissimo A, Cattaruzza T, Ceiner A, Lazarevic D, Cucca A, Pangher N, Marengo E, di Bernardo D, Pizzolato G, Gustincich S. Calligaris R, et al. Among authors: di bernardo d. BMC Genomics. 2015 Oct 28;16:876. doi: 10.1186/s12864-015-2058-3. BMC Genomics. 2015. PMID: 26510930 Free PMC article.
Automatic Control of Gene Expression in Mammalian Cells.
Fracassi C, Postiglione L, Fiore G, di Bernardo D. Fracassi C, et al. Among authors: di bernardo d. ACS Synth Biol. 2016 Apr 15;5(4):296-302. doi: 10.1021/acssynbio.5b00141. Epub 2015 Oct 6. ACS Synth Biol. 2016. PMID: 26414746
Reverse engineering transcriptional gene networks.
Belcastro V, di Bernardo D. Belcastro V, et al. Among authors: di bernardo d. Methods Mol Biol. 2014;1101:179-96. doi: 10.1007/978-1-62703-721-1_10. Methods Mol Biol. 2014. PMID: 24233783
TFEB controls cellular lipid metabolism through a starvation-induced autoregulatory loop.
Settembre C, De Cegli R, Mansueto G, Saha PK, Vetrini F, Visvikis O, Huynh T, Carissimo A, Palmer D, Klisch TJ, Wollenberg AC, Di Bernardo D, Chan L, Irazoqui JE, Ballabio A. Settembre C, et al. Among authors: di bernardo d. Nat Cell Biol. 2013 Jun;15(6):647-58. doi: 10.1038/ncb2718. Epub 2013 Apr 21. Nat Cell Biol. 2013. PMID: 23604321 Free PMC article.
Predicting synthetic gene networks.
di Bernardo D, Marucci L, Menolascina F, Siciliano V. di Bernardo D, et al. Methods Mol Biol. 2012;813:57-81. doi: 10.1007/978-1-61779-412-4_4. Methods Mol Biol. 2012. PMID: 22083736 Free PMC article.
Modeling RNA interference in mammalian cells.
Cuccato G, Polynikis A, Siciliano V, Graziano M, di Bernardo M, di Bernardo D. Cuccato G, et al. Among authors: di bernardo d. BMC Syst Biol. 2011 Jan 27;5:19. doi: 10.1186/1752-0509-5-19. BMC Syst Biol. 2011. PMID: 21272352 Free PMC article.
Discovery of drug mode of action and drug repositioning from transcriptional responses.
Iorio F, Bosotti R, Scacheri E, Belcastro V, Mithbaokar P, Ferriero R, Murino L, Tagliaferri R, Brunetti-Pierri N, Isacchi A, di Bernardo D. Iorio F, et al. Among authors: di bernardo d. Proc Natl Acad Sci U S A. 2010 Aug 17;107(33):14621-6. doi: 10.1073/pnas.1000138107. Epub 2010 Aug 2. Proc Natl Acad Sci U S A. 2010. PMID: 20679242 Free PMC article.
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