37:
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version of CINEMA, called CINEMA5 was developed early on as part of the UTOPIA project, and was released as a stand-alone sequence alignment application. It has now been replaced by a version of the tool integrated with UTOPIA's other visualisation applications, and its name has reverted simply to
862:
142:, rendering complex molecular structures in 3D, and for finding and using resources such as web services and data objects. There are two major components, the protein analysis suite and UTOPIA documents.
158:. Up front are user-friendly and responsive visualisation applications, behind the scenes a sophisticated model that allows these to work together and hides much of the tedious work of dealing with
251:
tool called VISTAS (VIsualizing STructures And
Sequences) which included the ability to render 3D molecular structure and generate plots and statistical representations of sequence properties.
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but is no longer maintained. A standalone Java version, called CINEMA-MX, was also released but is no longer readily available.
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brings a fresh new perspective to reading the scientific literature, combining the convenience and reliability of the
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355:
Fourth
International Conference on Coordinated & Multiple Views in Exploratory Visualization (CMV'06)
228:(GPCRs). SOMAP, a Screen Oriented Multiple Alignment Procedure was developed in the late 1980s on the
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586:(2011). "Ceci n'est pas un hamburger: Modelling and representing the scholarly article".
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684:(1991). "SOMAP: A novel interactive approach to multiple protein sequences alignment".
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The first tool under the CINEMA banner developed at The
University of Manchester was a
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470:"Visualising biological data: A semantic approach to tool and database integration"
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723:(1995). "VISTAS: A package for VIsualizing STructures and sequences of proteins".
353:(2006). "An Architecture for Visualisation and Interactive Analysis of Proteins".
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410:"Calling International Rescue: Knowledge lost in literature and data landslide!"
216:
UTOPIA's CINEMA (Colour INteractive Editor for
Multiple Alignments), a tool for
163:
159:
36:
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suite is a collection of interactive tools for analysing protein sequence and
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762:(1998). "CINEMA—a novel Colour INteractive Editor for Multiple Alignments".
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138:-driven data model, it contains applications for viewing and aligning
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220:, is the latest incarnation of software originally developed at The
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532:"Utopia documents: Linking scholarly literature with research data"
298:"UTOPIA—User-Friendly Tools for Operating Informatics Applications"
266:
233:
248:
244:
some time before these were standard operating system features.
631:"Integrating GPCR-specific information with full text articles"
210:
128:
User-friendly Tools for
Operating Informatics Applications
130:) is a suite of free tools for visualising and analysing
863:
Department of
Computer Science, University of Manchester
232:
computer operating system, used a monochrome text-based
582:; McDermott, P.; Marsh, J.; Thorne, D.; Villeger, A.;
460:; Thorne, D.; McDermott, P.; Marsh, J.; Villéger, A.;
758:
Parry-Smith, D. J.; Payne, A. W. R.; Michie, A. D.;
189:
Between 2003 and 2005 work on UTOPIA was funded via
101:
91:
83:
46:
858:Engineering and Physical Sciences Research Council
199:Engineering and Physical Sciences Research Council
803:"CINEMA-MX: A modular multiple alignment editor"
258:-based applet launched via web pages, which is
8:
868:Science and technology in Greater Manchester
29:
207:European Molecular Biology Network (EMBnet)
181:with the flexibility and power of the web.
35:
28:
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621:Vroling, B.; Thorne, D.; McDermott, P.;
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345:McDermott, P.; Sinnott, J.; Thorne, D.;
278:
284:
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211:EMBRACE European Network of Excellence
209:. Since 2005 work continues under the
7:
302:Comparative and Functional Genomics
25:
820:10.1093/bioinformatics/18.10.1402
203:Department of Trade And Industry
191:The e-Science North West Centre
698:10.1093/bioinformatics/7.2.233
179:Portable Document Format (pdf)
1:
776:10.1016/S0378-1119(97)00650-1
725:Journal of Molecular Graphics
548:10.1093/bioinformatics/btq383
236:video terminal, and featured
146:Utopia Protein Analysis suite
18:UTOPIA (Bioinformatics tools)
797:Lord, P. W.; Selley, J. N.;
737:10.1016/0263-7855(94)00013-I
526:; McDermott, P.; Marsh, J.;
404:; McDermott, P.; Marsh, J.;
195:The University of Manchester
487:10.1186/1471-2105-10-S6-S19
226:G protein-coupled receptors
884:
34:
648:10.1186/1471-2105-12-362
247:SOMAP was followed by a
848:Bioinformatics software
224:to aid the analysis of
238:context-sensitive help
97:Linux, Mac and Windows
853:Computational science
530:; Thorne, D. (2010).
408:; Thorne, D. (2009).
41:UTOPIA tools on a Mac
680:Parry-Smith, D. J.;
414:Biochemical Journal
222:University of Leeds
31:
635:BMC Bioinformatics
588:Learned Publishing
474:BMC Bioinformatics
426:10.1042/BJ20091474
363:10.1109/CMV.2006.3
292:; Sinnott, J. R.;
218:Sequence Alignment
134:data. Based on an
59:David Parry-Smith,
813:(10): 1402–1403.
542:(18): i568–i574.
372:978-0-7695-2605-8
156:protein structure
140:protein sequences
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79:Benjamin Blundell
16:(Redirected from
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770:(1): GC57–GC63.
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480:(Suppl 6): S19.
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692:(2): 233–235.
686:Bioinformatics
682:Attwood, T. K.
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584:Attwood, T. K.
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536:Bioinformatics
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420:(3): 317–333.
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357:. p. 55.
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77:Dave Thorne,
73:James Marsh,
65:A.D. Michie,
61:D.N.Perkins,
48:Developer(s)
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524:Kell, D. B.
462:Kell, D. B.
402:Kell, D. B.
351:Attwood, T.
150:The Utopia
111:.manchester
87:C++, Python
69:J.N.Selley,
63:A.W. Payne,
842:Categories
594:(3): 207.
274:References
205:, and the
84:Written in
193:based at
829:12376388
801:(2002).
667:21910883
629:(2011).
608:29739751
566:20823323
506:19534744
468:(2009).
444:19929850
381:43554573
332:18629035
296:(2004).
270:CINEMA.
136:ontology
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745:7794837
706:2059849
658:3179973
641:: 362.
557:2935404
497:2697642
435:2805925
323:2447318
197:by the
185:History
102:Website
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107:utopia
30:UTOPIA
604:S2CID
377:S2CID
234:VT100
201:, UK
825:PMID
780:PMID
764:Gene
741:PMID
702:PMID
663:PMID
562:PMID
502:PMID
440:PMID
367:ISBN
328:PMID
256:Java
249:Unix
240:and
162:and
815:doi
772:doi
768:221
733:doi
694:doi
653:PMC
643:doi
596:doi
552:PMC
544:doi
492:PMC
482:doi
430:PMC
422:doi
418:424
359:doi
318:PMC
310:doi
267:C++
230:VMS
115:.uk
113:.ac
109:.cs
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