| Year |
Citation |
Score |
| 2019 |
Mourikis TP, Benedetti L, Foxall E, Temelkovski D, Nulsen J, Perner J, Cereda M, Lagergren J, Howell M, Yau C, Fitzgerald RC, Scaffidi P, Ciccarelli FD. Patient-specific cancer genes contribute to recurrently perturbed pathways and establish therapeutic vulnerabilities in esophageal adenocarcinoma. Nature Communications. 10: 3101. PMID 31308377 DOI: 10.1038/S41467-019-10898-3 |
0.339 |
|
| 2019 |
Repana D, Nulsen J, Dressler L, Bortolomeazzi M, Venkata SK, Tourna A, Yakovleva A, Palmieri T, Ciccarelli FD. The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens. Genome Biology. 20: 1. PMID 30606230 DOI: 10.1186/S13059-018-1612-0 |
0.379 |
|
| 2018 |
Marschall T, Marz M, Abeel T, Dijkstra L, Dutilh BE, Ghaffaari A, Kersey P, Kloosterman WP, Makinen V, Novak AM, Paten B, Porubsky D, Rivals E, Alkan C, Baaijens JA, ... ... Ciccarelli FD, et al. Computational pan-genomics: status, promises and challenges. Briefings in Bioinformatics. 19: 118-135. PMID 27769991 DOI: 10.1093/Bib/Bbw089 |
0.574 |
|
| 2017 |
Benedetti L, Cereda M, Monteverde L, Desai N, Ciccarelli FD. Synthetic lethal interaction between the tumour suppressor STAG2 and its paralog STAG1. Oncotarget. PMID 28430577 DOI: 10.18632/Oncotarget.16838 |
0.392 |
|
| 2016 |
Cereda M, Mourikis TP, Ciccarelli FD. Genetic Redundancy, Functional Compensation, and Cancer Vulnerability. Trends in Cancer. 2: 160-162. PMID 28741568 DOI: 10.1016/J.Trecan.2016.03.003 |
0.305 |
|
| 2016 |
Gambardella G, Cereda M, Benedetti L, Ciccarelli FD. MEGA-V: detection of variant gene sets in patient cohorts. Bioinformatics (Oxford, England). PMID 28003259 DOI: 10.1093/Bioinformatics/Btw809 |
0.352 |
|
| 2016 |
Cereda M, Gambardella G, Benedetti L, Iannelli F, Patel D, Basso G, Guerra RF, Mourikis TP, Puccio I, Sinha S, Laghi L, Spencer J, Rodriguez-Justo M, Ciccarelli FD. Patients with genetically heterogeneous synchronous colorectal cancer carry rare damaging germline mutations in immune-related genes. Nature Communications. 7: 12072. PMID 27377421 DOI: 10.1038/Ncomms12072 |
0.303 |
|
| 2015 |
An O, Dall'Olio GM, Mourikis TP, Ciccarelli FD. NCG 5.0: updates of a manually curated repository of cancer genes and associated properties from cancer mutational screenings. Nucleic Acids Research. PMID 26516186 DOI: 10.1093/Nar/Gkv1123 |
0.353 |
|
| 2014 |
Iannelli F, Collino A, Sinha S, Radaelli E, Nicoli P, D'Antiga L, Sonzogni A, Faivre J, Buendia MA, Sturm E, Thompson RJ, Knisely AS, Natoli G, Ghisletti S, Ciccarelli FD. Massive gene amplification drives paediatric hepatocellular carcinoma caused by bile salt export pump deficiency. Nature Communications. 5: 3850. PMID 24819516 DOI: 10.1038/Ncomms4850 |
0.352 |
|
| 2014 |
An O, Pendino V, D'Antonio M, Ratti E, Gentilini M, Ciccarelli FD. NCG 4.0: the network of cancer genes in the era of massive mutational screenings of cancer genomes. Database : the Journal of Biological Databases and Curation. 2014: bau015. PMID 24608173 DOI: 10.1093/Database/Bau015 |
0.374 |
|
| 2013 |
D'Antonio M, Guerra RF, Cereda M, Marchesi S, Montani F, Nicassio F, Di Fiore PP, Ciccarelli FD. Recessive cancer genes engage in negative genetic interactions with their functional paralogs. Cell Reports. 5: 1519-26. PMID 24360954 DOI: 10.1016/J.Celrep.2013.11.033 |
0.403 |
|
| 2013 |
D'Antonio M, Ciccarelli FD. Integrated analysis of recurrent properties of cancer genes to identify novel drivers. Genome Biology. 14: R52. PMID 23718799 DOI: 10.1186/Gb-2013-14-5-R52 |
0.355 |
|
| 2012 |
D'Antonio M, Pendino V, Sinha S, Ciccarelli FD. Network of Cancer Genes (NCG 3.0): integration and analysis of genetic and network properties of cancer genes. Nucleic Acids Research. 40: D978-83. PMID 22080562 DOI: 10.1093/Nar/Gkr952 |
0.381 |
|
| 2011 |
D'Antonio M, Ciccarelli FD. Modification of gene duplicability during the evolution of protein interaction network. Plos Computational Biology. 7: e1002029. PMID 21490719 DOI: 10.1371/Journal.Pcbi.1002029 |
0.438 |
|
| 2010 |
Ciccarelli FD. The (r)evolution of cancer genetics. Bmc Biology. 8: 74. PMID 20594288 DOI: 10.1186/1741-7007-8-74 |
0.373 |
|
| 2010 |
Civril F, Wehenkel A, Giorgi FM, Santaguida S, Di Fonzo A, Grigorean G, Ciccarelli FD, Musacchio A. Structural analysis of the RZZ complex reveals common ancestry with multisubunit vesicle tethering machinery. Structure (London, England : 1993). 18: 616-26. PMID 20462495 DOI: 10.1016/J.Str.2010.02.014 |
0.346 |
|
| 2010 |
De Grassi A, Segala C, Iannelli F, Volorio S, Bertario L, Radice P, Bernard L, Ciccarelli FD. Ultradeep sequencing of a human ultraconserved region reveals somatic and constitutional genomic instability. Plos Biology. 8: e1000275. PMID 20052272 DOI: 10.1371/Journal.Pbio.1000275 |
0.372 |
|
| 2010 |
Syed AS, D'Antonio M, Ciccarelli FD. Network of Cancer Genes: a web resource to analyze duplicability, orthology and network properties of cancer genes. Nucleic Acids Research. 38: D670-5. PMID 19906700 DOI: 10.1093/Nar/Gkp957 |
0.397 |
|
| 2010 |
De Grassi A, Segala C, Iannelli F, Volorio S, Radice P, Ciccarelli F. Highly sensitive detection of genomic instability by ultradeep sequencing New Biotechnology. 27: S39. DOI: 10.1016/J.Nbt.2010.01.053 |
0.329 |
|
| 2009 |
Anelli V, Santoriello C, Distel M, Köster RW, Ciccarelli FD, Mione M. Global repression of cancer gene expression in a zebrafish model of melanoma is linked to epigenetic regulation. Zebrafish. 6: 417-24. PMID 20047469 DOI: 10.1089/Zeb.2009.0612 |
0.357 |
|
| 2009 |
De Grassi A, Ciccarelli FD. Tandem repeats modify the structure of human genes hosted in segmental duplications. Genome Biology. 10: R137. PMID 19954527 DOI: 10.1186/Gb-2009-10-12-R137 |
0.442 |
|
| 2009 |
Rambaldi D, Ciccarelli FD. FancyGene: dynamic visualization of gene structures and protein domain architectures on genomic loci. Bioinformatics (Oxford, England). 25: 2281-2. PMID 19542150 DOI: 10.1093/Bioinformatics/Btp381 |
0.426 |
|
| 2008 |
Rambaldi D, Giorgi FM, Capuani F, Ciliberto A, Ciccarelli FD. Low duplicability and network fragility of cancer genes. Trends in Genetics : Tig. 24: 427-30. PMID 18675489 DOI: 10.1016/J.Tig.2008.06.003 |
0.405 |
|
| 2008 |
Soldà G, Suyama M, Pelucchi P, Boi S, Guffanti A, Rizzi E, Bork P, Tenchini ML, Ciccarelli FD. Non-random retention of protein-coding overlapping genes in Metazoa. Bmc Genomics. 9: 174. PMID 18416813 DOI: 10.1186/1471-2164-9-174 |
0.662 |
|
| 2007 |
Fumasoni I, Meani N, Rambaldi D, Scafetta G, Alcalay M, Ciccarelli FD. Family expansion and gene rearrangements contributed to the functional specialization of PRDM genes in vertebrates. Bmc Evolutionary Biology. 7: 187. PMID 17916234 DOI: 10.1186/1471-2148-7-187 |
0.427 |
|
| 2006 |
Ciccarelli FD, Doerks T, von Mering C, Creevey CJ, Snel B, Bork P. Toward automatic reconstruction of a highly resolved tree of life. Science (New York, N.Y.). 311: 1283-7. PMID 16513982 DOI: 10.1126/Science.1123061 |
0.723 |
|
| 2005 |
Mees A, Rock R, Ciccarelli FD, Leberfinger CB, Borawski JM, Bork P, Wiese S, Gessler M, Kerkhoff E. Very-KIND is a novel nervous system specific guanine nucleotide exchange factor for Ras GTPases. Gene Expression Patterns : Gep. 6: 79-85. PMID 16099729 DOI: 10.1016/J.Modgep.2005.04.015 |
0.585 |
|
| 2005 |
Hillier LW, Graves TA, Fulton RS, Fulton LA, Pepin KH, Minx P, Wagner-McPherson C, Layman D, Wylie K, Sekhon M, Becker MC, Fewell GA, Delehaunty KD, Miner TL, Nash WE, ... ... Ciccarelli FD, et al. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. 434: 724-31. PMID 15815621 DOI: 10.1038/Nature03466 |
0.629 |
|
| 2005 |
Ciccarelli FD, von Mering C, Suyama M, Harrington ED, Izaurralde E, Bork P. Complex genomic rearrangements lead to novel primate gene function. Genome Research. 15: 343-51. PMID 15710750 DOI: 10.1101/Gr.3266405 |
0.781 |
|
| 2005 |
Ciccarelli FD, Bork P. The WHy domain mediates the response to desiccation in plants and bacteria. Bioinformatics (Oxford, England). 21: 1304-7. PMID 15598830 DOI: 10.1093/Bioinformatics/Bti221 |
0.518 |
|
| 2004 |
Forler D, Rabut G, Ciccarelli FD, Herold A, Köcher T, Niggeweg R, Bork P, Ellenberg J, Izaurralde E. RanBP2/Nup358 provides a major binding site for NXF1-p15 dimers at the nuclear pore complex and functions in nuclear mRNA export. Molecular and Cellular Biology. 24: 1155-67. PMID 14729961 DOI: 10.1128/Mcb.24.3.1155-1167.2004 |
0.436 |
|
| 2004 |
Letunic I, Copley RR, Schmidt S, Ciccarelli FD, Doerks T, Schultz J, Ponting CP, Bork P. SMART 4.0: towards genomic data integration. Nucleic Acids Research. 32: D142-4. PMID 14681379 DOI: 10.1093/Nar/Gkh088 |
0.77 |
|
| 2003 |
Perez-Iratxeta C, Astola N, Ciccarelli FD, Sha PK, Bork P, Andrade MA. A protocol for the update of references to scientific literature in biological databases. Applied Bioinformatics. 2: 189-91. PMID 15130808 |
0.668 |
|
| 2003 |
Ciccarelli FD, Izaurralde E, Bork P. The PAM domain, a multi-protein complex-associated module with an all-alpha-helix fold. Bmc Bioinformatics. 4: 64. PMID 14687415 DOI: 10.1186/1471-2105-4-64 |
0.562 |
|
| 2003 |
von Mering C, Zdobnov EM, Tsoka S, Ciccarelli FD, Pereira-Leal JB, Ouzounis CA, Bork P. Genome evolution reveals biochemical networks and functional modules. Proceedings of the National Academy of Sciences of the United States of America. 100: 15428-33. PMID 14673105 DOI: 10.1073/Pnas.2136809100 |
0.751 |
|
| 2003 |
Gatfield D, Unterholzner L, Ciccarelli FD, Bork P, Izaurralde E. Nonsense-mediated mRNA decay in Drosophila: at the intersection of the yeast and mammalian pathways. The Embo Journal. 22: 3960-70. PMID 12881430 DOI: 10.1093/Emboj/Cdg371 |
0.485 |
|
| 2003 |
Ciccarelli FD, Bork P, Kerkhoff E. The KIND module: a putative signalling domain evolved from the C lobe of the protein kinase fold. Trends in Biochemical Sciences. 28: 349-52. PMID 12877999 DOI: 10.1016/S0968-0004(03)00116-6 |
0.541 |
|
| 2003 |
Ciccarelli FD, Proukakis C, Patel H, Cross H, Azam S, Patton MA, Bork P, Crosby AH. The identification of a conserved domain in both spartin and spastin, mutated in hereditary spastic paraplegia. Genomics. 81: 437-41. PMID 12676568 DOI: 10.1016/S0888-7543(03)00011-9 |
0.574 |
|
| 2002 |
Andrade MA, Ciccarelli FD, Perez-Iratxeta C, Bork P. NEAT: a domain duplicated in genes near the components of a putative Fe3+ siderophore transporter from Gram-positive pathogenic bacteria. Genome Biology. 3: RESEARCH0047. PMID 12225586 DOI: 10.1186/Gb-2002-3-9-Research0047 |
0.731 |
|
| 2002 |
Patel H, Cross H, Proukakis C, Hershberger R, Bork P, Ciccarelli FD, Patton MA, McKusick VA, Crosby AH. SPG20 is mutated in Troyer syndrome, an hereditary spastic paraplegia. Nature Genetics. 31: 347-8. PMID 12134148 DOI: 10.1038/Ng937 |
0.447 |
|
| 2002 |
Aloy P, Ciccarelli FD, Leutwein C, Gavin AC, Superti-Furga G, Bork P, Bottcher B, Russell RB. A complex prediction: three-dimensional model of the yeast exosome. Embo Reports. 3: 628-35. PMID 12101094 DOI: 10.1093/Embo-Reports/Kvf135 |
0.504 |
|
| 2002 |
Ciccarelli FD, Doerks T, Bork P. AMOP, a protein module alternatively spliced in cancer cells. Trends in Biochemical Sciences. 27: 113-5. PMID 11893501 DOI: 10.1016/S0968-0004(01)02049-7 |
0.72 |
|
| 2002 |
Ciccarelli FD, Copley RR, Doerks T, Russell RB, Bork P. CASH--a beta-helix domain widespread among carbohydrate-binding proteins. Trends in Biochemical Sciences. 27: 59-62. PMID 11852237 DOI: 10.1016/S0968-0004(01)02046-1 |
0.759 |
|
| 2002 |
Letunic I, Goodstadt L, Dickens NJ, Doerks T, Schultz J, Mott R, Ciccarelli F, Copley RR, Ponting CP, Bork P. Recent improvements to the SMART domain-based sequence annotation resource. Nucleic Acids Research. 30: 242-4. PMID 11752305 DOI: 10.1093/Nar/30.1.242 |
0.756 |
|
| 2000 |
Ciccarelli FD, Acciarito A, Alberti S. Large and diverse numbers of human diseases with HIKE mutations. Human Molecular Genetics. 9: 1001-7. PMID 10767324 DOI: 10.1093/Hmg/9.6.1001 |
0.38 |
|
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