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DDX3 depletion represses translation of mRNAs with complex 5' UTRs. Nucleic Acids Res. 2021 05 21; 49(9):5336-5350.
Calviello L, Venkataramanan S, Rogowski KJ, Wyler E, Wilkins K, Tejura M, Thai B, Krol J, Filipowicz W, Landthaler M, Floor SN. PMID: 33905506.
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1 Fields:
Translation:
HumansCells
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Control of ribosomal protein synthesis by the Microprocessor complex. Sci Signal. 2021 Feb 23; 14(671).
Jiang X, Prabhakar A, Van der Voorn SM, Ghatpande P, Celona B, Venkataramanan S, Calviello L, Lin C, Wang W, Black BL, Floor SN, Lagna G, Hata A. PMID: 33622983.
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Genome-Wide Analysis of Actively Translated Open Reading Frames Using RiboTaper/ORFquant. Methods Mol Biol. 2021; 2252:331-346.
Harnett D, Meerdink E, Calviello L, Sydow D, Ohler U. PMID: 33765284.
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Translation:
HumansAnimalsCells
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Quantification of translation uncovers the functions of the alternative transcriptome. Nat Struct Mol Biol. 2020 08; 27(8):717-725.
Calviello L, Hirsekorn A, Ohler U. PMID: 32601440.
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Translation:
HumansCells
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A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature. 2020 07; 583(7816):459-468.
Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Meyer B, Roesch F, Vallet T, Mac Kain A, Miorin L, Moreno E, Naing ZZC, Zhou Y, Peng S, Shi Y, Zhang Z, Shen W, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Lyu J, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Rakesh R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Liboy-Lugo J, Lin Y, Huang XP, Liu Y, Wankowicz SA, Bohn M, Safari M, Ugur FS, Koh C, Savar NS, Tran QD, Shengjuler D, Fletcher SJ, O'Neal MC, Cai Y, Chang JCJ, Broadhurst DJ, Klippsten S, Sharp PP, Wenzell NA, Kuzuoglu-Ozturk D, Wang HY, Trenker R, Young JM, Cavero DA, Hiatt J, Roth TL, Rathore U, Subramanian A, Noack J, Hubert M, Stroud RM, Frankel AD, Rosenberg OS, Verba KA, Agard DA, Ott M, Emerman M, Jura N, von Zastrow M, Verdin E, Ashworth A, Schwartz O, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor SN, Fraser JS, Gross JD, Sali A, Roth BL, Ruggero D, Taunton J, Kortemme T, Beltrao P, Vignuzzi M, García-Sastre A, Shokat KM, Shoichet BK, Krogan NJ. PMID: 32353859.
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Integrated proteogenomic deep sequencing and analytics accurately identify non-canonical peptides in tumor immunopeptidomes. Nat Commun. 2020 03 10; 11(1):1293.
Chong C, Müller M, Pak H, Harnett D, Huber F, Grun D, Leleu M, Auger A, Arnaud M, Stevenson BJ, Michaux J, Bilic I, Hirsekorn A, Calviello L, Simó-Riudalbas L, Planet E, Lubinski J, Bryskiewicz M, Wiznerowicz M, Xenarios I, Zhang L, Trono D, Harari A, Ohler U, Coukos G, Bassani-Sternberg M. PMID: 32157095.
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PubMed Mentions:
24 Fields:
Translation:
HumansCells
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The Translational Landscape of the Human Heart. Cell. 2019 06 27; 178(1):242-260.e29.
van Heesch S, Witte F, Schneider-Lunitz V, Schulz JF, Adami E, Faber AB, Kirchner M, Maatz H, Blachut S, Sandmann CL, Kanda M, Worth CL, Schafer S, Calviello L, Merriott R, Patone G, Hummel O, Wyler E, Obermayer B, Mücke MB, Lindberg EL, Trnka F, Memczak S, Schilling M, Felkin LE, Barton PJR, Quaife NM, Vanezis K, Diecke S, Mukai M, Mah N, Oh SJ, Kurtz A, Schramm C, Schwinge D, Sebode M, Harakalova M, Asselbergs FW, Vink A, de Weger RA, Viswanathan S, Widjaja AA, Gärtner-Rommel A, Milting H, Dos Remedios C, Knosalla C, Mertins P, Landthaler M, Vingron M, Linke WA, Seidman JG, Seidman CE, Rajewsky N, Ohler U, Cook SA, Hubner N. PMID: 31155234.
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PubMed Mentions:
97 Fields:
Translation:
HumansAnimalsCells
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RNA localization is a key determinant of neurite-enriched proteome. Nat Commun. 2017 09 19; 8(1):583.
Zappulo A, van den Bruck D, Ciolli Mattioli C, Franke V, Imami K, McShane E, Moreno-Estelles M, Calviello L, Filipchyk A, Peguero-Sanchez E, Müller T, Woehler A, Birchmeier C, Merino E, Rajewsky N, Ohler U, Mazzoni EO, Selbach M, Akalin A, Chekulaeva M. PMID: 28928394.
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PubMed Mentions:
54 Fields:
Translation:
AnimalsCells
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Beyond Read-Counts: Ribo-seq Data Analysis to Understand the Functions of the Transcriptome. Trends Genet. 2017 10; 33(10):728-744.
Calviello L, Ohler U. PMID: 28887026.
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PubMed Mentions:
27 Fields:
Translation:
Cells
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Integrative classification of human coding and noncoding genes through RNA metabolism profiles. Nat Struct Mol Biol. 2017 01; 24(1):86-96.
Mukherjee N, Calviello L, Hirsekorn A, de Pretis S, Pelizzola M, Ohler U. PMID: 27870833.
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PubMed Mentions:
49 Fields:
Translation:
HumansCells
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Super-resolution ribosome profiling reveals unannotated translation events in Arabidopsis. Proc Natl Acad Sci U S A. 2016 Nov 08; 113(45):E7126-E7135.
Hsu PY, Calviello L, Wu HL, Li FW, Rothfels CJ, Ohler U, Benfey PN. PMID: 27791167.
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PubMed Mentions:
49 Fields:
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On Fine Stochastic Simulations of Liposome-Encapsulated PUREsystem™. Advances in Artificial Life, Evolutionary Computation and Systems Chemistry. 2016 Jan 1; 587:146-158.
Lorenzo Calviello, Lorenzo Lazzerini-Ospri, Roberto Marangoni. .
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Detecting actively translated open reading frames in ribosome profiling data. Nat Methods. 2016 Feb; 13(2):165-70.
Calviello L, Mukherjee N, Wyler E, Zauber H, Hirsekorn A, Selbach M, Landthaler M, Obermayer B, Ohler U. PMID: 26657557.
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PubMed Mentions:
127 Fields:
Translation:
HumansCells
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Extensive identification and analysis of conserved small ORFs in animals. Genome Biol. 2015 Sep 14; 16:179.
Mackowiak SD, Zauber H, Bielow C, Thiel D, Kutz K, Calviello L, Mastrobuoni G, Rajewsky N, Kempa S, Selbach M, Obermayer B. PMID: 26364619.
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PubMed Mentions:
49 Fields:
Translation:
HumansAnimalsCells
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Quasi-cellular systems: stochastic simulation analysis at nanoscale range. BMC Bioinformatics. 2013; 14 Suppl 7:S7.
Calviello L, Stano P, Mavelli F, Luisi PL, Marangoni R. PMID: 23815522.
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PubMed Mentions:
5 Fields:
Translation:
Cells
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Quasi-cellular systems: stochastic simulation analysis at nanoscale range. EMBnet journal. 2012 Apr 29; 18(A):26.
L Calviello, P Stano, F Mavelli, PL Luisi, R Marangoni. .
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