Liverpool Skyline

Department of Computer Science

Dr Fawaz Ghali

Dr Fawaz Ghali

Telephone: 0151 231 2188

google Scholar
ORCID

Publications

Highlighted publications

Menschaert G, Wang X, Jones AR, Ghali F, Fenyo D, Olexiouk V, Zhang B, Deutsch EW, Ternent T, Vizcaino JA. 2018. The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data Genome Biology, 19 DOI Author Url Publisher Url Public Url

Ghali F, Krishna R, Perkins S, Collins A, Xia D, Wastling J, Jones AR. 2014. ProteoAnnotator - Open source proteogenomics annotation software supporting PSI standards PROTEOMICS, 14 :2731-2741 DOI Author Url

Journal article

Menschaert G, Wang X, Jones AR, Ghali F, Fenyo D, Olexiouk V, Zhang B, Deutsch EW, Ternent T, Vizcaino JA. 2018. The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data Genome Biology, 19 DOI Author Url Publisher Url Public Url

Vizcaino JA, Mayer G, Perkins S, Barsnes H, Vaudel M, Perez-Riverol Y, Ternent T, Uszkoreit J, Eisenacher M, Fischer L, Rappsilber J, Netz E, Walzer M, Kohlbacher O, Leitner A, Chalkley RJ, Ghali F, Martinez-Bartolome S, Deutsch EW, Jones AR. 2017. The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics MOLECULAR & CELLULAR PROTEOMICS, 16 :1275-1285 DOI Author Url

Fan J, Saha S, Barker G, Heesom KJ, Ghali F, Jones AR, Matthews DA, Bessant C. 2015. Galaxy Integrated Omics: Web-based Standards-Compliant Workflows for Proteomics Informed by Transcriptomics MOLECULAR & CELLULAR PROTEOMICS, 14 :3087-3093 DOI Author Url

Wen B, Du C, Li G, Ghali F, Jones AR, Kall L, Xu S, Zhou R, Ren Z, Feng Q, Xu X, Wang J. 2015. IPeak: An open source tool to combine results from multiple MS/MS search engines PROTEOMICS, 15 :2916-2920 DOI Author Url

Krishna R, Xia D, Sanderson S, Shanmugasundram A, Vermont S, Bernal A, Daniel-Naguib G, Ghali F, Brunk BP, Roos DS, Wastling JM, Jones AR. 2015. A large-scale proteogenomics study of apicomplexan pathogens-Toxoplasma gondii and Neospora caninum PROTEOMICS, 15 :2618-2628 DOI Author Url

Ghali F, Krishna R, Perkins S, Collins A, Xia D, Wastling J, Jones AR. 2014. ProteoAnnotator - Open source proteogenomics annotation software supporting PSI standards PROTEOMICS, 14 :2731-2741 DOI Author Url

Seymour SL, Farrah T, Binz P-A, Chalkley RJ, Cottrell JS, Searle BC, Tabb DL, Vizcaino JA, Prieto G, Uszkoreit J, Eisenacher M, Martinez-Bartolome S, Ghali F, Jones AR. 2014. A standardized framing for reporting protein identifications in mzIdentML 1.2 PROTEOMICS, 14 :2389-2399 DOI Author Url

Griss J, Jones AR, Sachsenberg T, Walzer M, Gatto L, Hartler J, Thallinger GG, Salek RM, Steinbeck C, Neuhauser N, Cox J, Neumann S, Fan J, Reisinger F, Xu Q-W, del Toro N, Perez-Riverol Y, Ghali F, Bandeira N, Xenarios I, Kohlbacher O, Vizcaino JA, Hermjakob H. 2014. The mzTab Data Exchange Format: Communicating Mass-spectrometry-based Proteomics and Metabolomics Experimental Results to a Wider Audience MOLECULAR & CELLULAR PROTEOMICS, 13 :2765-2775 DOI Author Url

Ghali F, Krishna R, Lukasse P, Martinez-Bartolome S, Reisinger F, Hermjakob H, Vizcaino JA, Jones AR. 2013. Tools (Viewer, Library and Validator) that Facilitate Use of the Peptide and Protein Identification Standard Format, Termed mzIdentML MOLECULAR & CELLULAR PROTEOMICS, 12 :3026-3035 DOI Author Url

Alberto Medina-Aunon J, Krishna R, Ghali F, Albar JP, Jones AJ. 2013. A guide for integration of proteomic data standards into laboratory workflows PROTEOMICS, 13 :480-492 DOI Author Url

Xia D, Ghali F, Gaskell SJ, O'Cualain R, Sims PFG, Jones AR. 2012. Software for analysing ion mobility mass spectrometry data to improve peptide identification PROTEOMICS, 12 :1912-1916 DOI Author Url

Reisinger F, Krishna R, Ghali F, Rios D, Hermjakob H, Vizcaino JA, Jones AR. 2012. jmzIdentML API: A Java interface to the mzIdentML standard for peptide and protein identification data PROTEOMICS, 12 :790-794 DOI Author Url

Cristea AI, Ghali F. 2011. Towards adaptation in e-learning 2.0 NEW REVIEW OF HYPERMEDIA AND MULTIMEDIA, 17 :199-238 DOI Author Url

Chapters

Ghali F, Jones AR. 2017. Chapter 15: Proteogenomics: Proteomics for Genome Annotation New Developments in Mass Spectrometry 2017-January :367-384 DOI

Cristea A, Ghali F, Joy M. 2011. Social, personalized lifelong learning E-Infrastructures and Technologies for Lifelong Learning: Next Generation Environments :90-125 9781615209835 DOI

Conference publication

Ghali F, Cristea AI. 2009. Authoring for E-Learning 2.0: a Case Study Aedo I, Chen NS, Sampson D, Zaitseva L, Kinshunk X. ICALT: 2009 IEEE INTERNATIONAL CONFERENCE ON ADVANCED LEARNING TECHNOLOGIES, IEEE International Conference on Advanced Learning Technologies :170-174 DOI Author Url

Ghali F, Cristea AI. 2009. MOT 2.0: A Case Study on the Usefuleness of Social Modeling for Personalized E-Learning Systems Dimitrova V, Mizoguchi R, DuBoulay B, Graesser A. ARTIFICIAL INTELLIGENCE IN EDUCATION, 14th International Conference on Artificial Intelligence in Education (AIED 2009) 200 :333-+ DOI Author Url

Ghali F, Cristea AI. 2009. Social Reference Model for Adaptive Web Learning Spaniol M, Li Q, Klamma R, Lau RWH. ADVANCES IN WEB BASED LEARNING - ICWL 2009, 8th International Conference on Web Based Learning (ICWL 2009) 5686 :162-171 DOI Author Url

Gross T, Ghali F, Cristea AI. 2008. Communication and collaboration towards problem solving: Evaluation of pils CEUR Workshop Proceedings, 384

Ghali F, I. Cristea A, Stewart C. 2008. My online teacher 2.0 CEUR Workshop Proceedings, 384

Ghali F, Cristea AI. 2008. Interoperability between MOT and learning management systems: converting CAF to IMS QTI and IMS CP Nejdl W, Kay J, Pu P, Herder E. ADAPTIVE HYPERMEDIA AND ADAPTIVE WEB-BASED SYSTEMS, 5th International Conference on Adaptive Hypermedia and Adaptive Web-Based Systems 5149 :296-+ DOI Author Url

Ghali F, Cristea AI. 2008. Evaluation of Interoperability between MOT and Regular Learning Management Systems Dillenbourg P, Specht M. TIMES OF CONVERGENCE: TECHNOLOGIES ACROSS LEARNING CONTEXTS, PROCEEDINGS, 3rd European Conference on Technology Enhanced Learning (EC-TEL 2008) 5192 :104-109 DOI Author Url