Marco Brandizi

Marco Brandizi

Senior Sofware Engineer, BioMedBridges

ORCID iD: 0000-0002-5427-2496

Tel:+44 (0)1223 49 2613 / Fax:+44 (0)1223 494 468

Publications

2013

ArrayExpress update--trends in database growth and links to data analysis tools.
Rustici G, Kolesnikov N, Brandizi M, Burdett T, Dylag M, Emam I, Farne A, Hastings E, Ison J, Keays M, Kurbatova N, Malone J, Mani R, Mupo A, Pedro Pereira R, Pilicheva E, Rung J, Sharma A, Tang YA, Ternent T, Tikhonov A, Welter D, Williams E, Brazma A, Parkinson H, Sarkans U.
Nucleic Acids Res Volume 41 (2013) p.d987-90
DOI: 10.1093/nar/gks1174

2012

The BioSample Database (BioSD) at the European Bioinformatics Institute.
Gostev M, Faulconbridge A, Brandizi M, Fernandez-Banet J, Sarkans U, Brazma A, Parkinson H.
Nucleic Acids Res Volume 40 (2012) p.d64-70
DOI: 10.1093/nar/gkr937

graph2tab, a library to convert experimental workflow graphs into tabular formats.
Brandizi M, Kurbatova N, Sarkans U, Rocca-Serra P.
Bioinformatics Volume 28 (2012) p.1665-1667
DOI: 10.1093/bioinformatics/bts258

2011

Knowledge sharing and collaboration in translational research, and the DC-THERA Directory.
Splendiani A, Gündel M, Austyn JM, Cavalieri D, Scognamiglio C, Brandizi M.
Brief Bioinform Volume 12 (2011) p.562-575
DOI: 10.1093/bib/bbr051

ArrayExpress update--an archive of microarray and high-throughput sequencing-based functional genomics experiments.
Parkinson H, Sarkans U, Kolesnikov N, Abeygunawardena N, Burdett T, Dylag M, Emam I, Farne A, Hastings E, Holloway E, Kurbatova N, Lukk M, Malone J, Mani R, Pilicheva E, Rustici G, Sharma A, Williams E, Adamusiak T, Brandizi M, Sklyar N, Brazma A.
Nucleic Acids Res Volume 39 (2011) p.d1002-4
DOI: 10.1093/nar/gkq1040

2010

ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level.
Rocca-Serra P, Brandizi M, Maguire E, Sklyar N, Taylor C, Begley K, Field D, Harris S, Hide W, Hofmann O, Neumann S, Sterk P, Tong W, Sansone SA.
Bioinformatics Volume 26 (2010) p.2354-2356
DOI: 10.1093/bioinformatics/btq415

DC-ATLAS: a systems biology resource to dissect receptor specific signal transduction in dendritic cells.
Cavalieri D, Rivero D, Beltrame L, Buschow SI, Calura E, Rizzetto L, Gessani S, Gauzzi MC, Reith W, Baur A, Bonaiuti R, Brandizi M, De Filippo C, D'Oro U, Draghici S, Dunand-Sauthier I, Gatti E, Granucci F, Gündel M, Kramer M, Kuka M, Lanyi A, Melief CJ, van Montfoort N, Ostuni R, Pierre P, Popovici R, Rajnavolgyi E, Schierer S, Schuler G, Soumelis V, Splendiani A, Stefanini I, Torcia MG, Zanoni I, Zollinger R, Figdor CG, Austyn JM.
Immunome Res Volume 6 (2010) p.10
DOI: 10.1186/1745-7580-6-10

2009

ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression.
Parkinson H, Kapushesky M, Kolesnikov N, Rustici G, Shojatalab M, Abeygunawardena N, Berube H, Dylag M, Emam I, Farne A, Holloway E, Lukk M, Malone J, Mani R, Pilicheva E, Rayner TF, Rezwan F, Sharma A, Williams E, Bradley XZ, Adamusiak T, Brandizi M, Burdett T, Coulson R, Krestyaninova M, Kurnosov P, Maguire E, Neogi SG, Rocca-Serra P, Sansone SA, Sklyar N, Zhao M, Sarkans U, Brazma A.
Nucleic Acids Res Volume 37 (2009) p.d868-72
DOI: 10.1093/nar/gkn889

Towards interoperable reporting standards for omics data: hopes and hurdles.
Sansone SA, Rocca-Serra P, Field D, Taylor CF, Tong W, Brandizi M, Maguire E, Sklyar N.
Summit on Translat Bioinforma Volume 2009 (2009) p.112-115

2008

The first RSBI (ISA-TAB) workshop: "can a simple format work for complex studies?".
Sansone SA, Rocca-Serra P, Brandizi M, Brazma A, Field D, Fostel J, Garrow AG, Gilbert J, Goodsaid F, Hardy N, Jones P, Lister A, Miller M, Morrison N, Rayner T, Sklyar N, Taylor C, Tong W, Warner G, Wiemann S, Members of the RSBI Working Group.
OMICS Volume 12 (2008) p.143-149
DOI: 10.1089/omi.2008.0019

2007

The genopolis microarray database.
Splendiani A, Brandizi M, Even G, Beretta O, Pavelka N, Pelizzola M, Mayhaus M, Foti M, Mauri G, Ricciardi-Castagnoli P.
BMC Bioinformatics Volume 8 Suppl 1 (2007) p.s21
DOI: 10.1186/1471-2105-8-s1-s21