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Member - University of London Birkbeck College

Birkbeck College is ranked among the leading UK university institutions for its levels of national and international excellence in research in the humanities, social sciences and natural sciences. From this base of research excellence, which embraces a distinctive interdisciplinary approach in and between many of its departments, Birkbeck provides a unique range of degree and other courses designed specially to meet the needs of mature students.

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Work published with BioMed Central, Chemistry Central and SpringerOpen by researchers at University of London Birkbeck College

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	1.	Research article Finding qualitative research: an evaluation of search strategies Rachel L Shaw, Andrew Booth, Alex J Sutton, Tina Miller, Jonathan A Smith, Bridget Young, David R Jones, Mary Dixon-Woods BMC Medical Research Methodology 2004, 4:5 (16 March 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	2.	Research article A randomised controlled pilot study: the effectiveness of narrative exposure therapy with adult survivors of the Sichuan earthquake Yinyin Zang, Nigel Hunt, Tom Cox BMC Psychiatry 2013, 13:41 (31 January 2013) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	3.	Research article Benchmarking natural-language parsers for biological applications using dependency graphs Andrew B Clegg, Adrian J Shepherd BMC Bioinformatics 2007, 8:24 (25 January 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 1 comment
	4.	Research article Variable structure motifs for transcription factor binding sites John E Reid, Kenneth J Evans, Nigel Dyer, Lorenz Wernisch, Sascha Ott BMC Genomics 2010, 11:30 (14 January 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	5.	Research article Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes Boris G Mirkin, Trevor I Fenner, Michael Y Galperin, Eugene V Koonin BMC Evolutionary Biology 2003, 3:2 (6 January 2003) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A new analysis of orthologous genes in prokaryotes suggest that horizontal gene transfer has been as common as gene loss during bacterial evolution and may have been the dominant force in early prokaryotic evolution.
	6.	Research article Microbial oxidation of arsenite in a subarctic environment: diversity of arsenite oxidase genes and identification of a psychrotolerant arsenite oxidiser Thomas H Osborne, Heather E Jamieson, Karen A Hudson-Edwards, D Kirk Nordstrom, Stephen R Walker, Seamus A Ward, Joanne M Santini BMC Microbiology 2010, 10:205 (30 July 2010) Abstract \| Full text \| PDF \| PubMed
	7.	Methodology article A text-mining system for extracting metabolic reactions from full-text articles Jan Czarnecki, Irene Nobeli, Adrian M Smith, Adrian J Shepherd BMC Bioinformatics 2012, 13:172 (23 July 2012) Abstract \| Full text \| PDF \| PubMed
	8.	Research Understanding differences in access and use of healthcare between international immigrants to Chile and the Chilean-born: a repeated cross-sectional population-based study in Chile Baltica Cabieses, Helena Tunstall, Kate E Pickett, Jasmine Gideon International Journal for Equity in Health 2012, 11:68 (16 November 2012) Abstract \| Full text \| PDF \| PubMed
	9.	Method Quantification of global transcription patterns in prokaryotes using spotted microarrays Ben Sidders, Mike Withers, Sharon L Kendall, Joanna Bacon, Simon J Waddell, Jason Hinds, Paul Golby, Farahnaz Movahedzadeh, Robert A Cox, Rosangela Frita, Annemieke MC ten Bokum, Lorenz Wernisch, Neil G Stoker Genome Biology 2007, 8:R265 (13 December 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary An analysis is described, applicable to any spotted microarray dataset that is produced using genomic DNA as a reference for quantifying prokaryotic levels of mRNA on a genome-wide scale.
	10.	Research article Factor analysis for gene regulatory networks and transcription factor activity profiles Iosifina Pournara, Lorenz Wernisch BMC Bioinformatics 2007, 8:61 (23 February 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	11.	Methodology article Visualisation of variable binding pockets on protein surfaces by probabilistic analysis of related structure sets Paul Ashford, David S Moss, Alexander Alex, Siew K Yeap, Alice Povia, Irene Nobeli, Mark A Williams BMC Bioinformatics 2012, 13:39 (14 March 2012) Abstract \| Full text \| PDF \| PubMed
	12.	Research article The critical role of arginine residues in the binding of human monoclonal antibodies to cardiolipin Ian Giles, Nancy Lambrianides, David Latchman, Pojen Chen, Reginald Chukwuocha, David Isenberg, Anisur Rahman Arthritis Res Ther 2005, 7:R47-R56 (16 November 2004) Abstract \| Full text \| PDF \| PubMed
	13.	Research Circulating anions usually associated with the Krebs cycle in patients with metabolic acidosis Lui G Forni, William McKinnon, Gwyn A Lord, David F Treacher, Jean-Marie R Peron, Philip J Hilton Critical Care 2005, 9:R591-R595 (13 September 2005) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 1 comment
	14.	Research article Characterisation of temperature-dependent phase transitions in 2,2-trimethylenedioxy- 4,4,6,6-tetrachlorocyclotriphosphazene, N₃P₃Cl₄[O(CH₂)₃O] Simon J Coles, David B Davies, Michael B Hursthouse, Susanne L Huth, Adem Kılıç, Mark E Light, Marianne Odlyha, John S Rutherford, Robert A Shaw, Aylin Uslu Chemistry Central Journal 2007, 1:20 (18 July 2007) Abstract \| Full text \| PDF \| PubMed
	15.	Research article Lipid bilayer composition influences small multidrug transporters Kalypso Charalambous, David Miller, Paul Curnow, Paula J Booth BMC Biochemistry 2008, 9:31 (25 November 2008) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The activity of two bacterial multidrug transporters increases in membrane bilayers containing phosphatidylethanolamine, with EmrE from Escherichia coli and TBsmr from Mycobacterium tuberculosis also becoming more active in the presence of phosphatidylglycerol and phosphatidylinositol, respectively.
	16.	Research article A comparative study of S/MAR prediction tools Kenneth Evans, Sascha Ott, Annika Hansen, Georgy Koentges, Lorenz Wernisch BMC Bioinformatics 2007, 8:71 (2 March 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	17.	Study protocol Partners of people on ART - a New Evaluation of the Risks (The PARTNER study): design and methods Alison Rodger, Tina Bruun, Matthew Weait, Pietro Vernazza, Simon Collins, Vicente Estrada, Jan Lunzen, Giulio Corbelli, Fiona Lampe, Andrew Phillips, Jens Lundgren, BMC Public Health 2012, 12:296 (20 April 2012) Abstract \| Full text \| PDF \| PubMed
	18.	Research The role of Src kinase in the biology and pathogenesis of Acanthamoeba castellanii Ruqaiyyah Siddiqui, Junaid Iqbal, Marie-josée Maugueret, Naveed Khan Parasites & Vectors 2012, 5:112 (7 June 2012) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary This study describes the involvement of Src kinase in Acanthamoeba proliferation, protease secretions and phagocytic properties suggesting its potential role in developing anti-acanthamoebic strategies. Image: Src kinase (domain architecture) and Acanthamoeba.
	19.	Technical Note GPCRTree: online hierarchical classification of GPCR function Matthew N Davies, Andrew Secker, Mark Halling-Brown, David S Moss, Alex A Freitas, Jon Timmis, Edward Clark, Darren R Flower BMC Research Notes 2008, 1:67 (21 August 2008) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	20.	Research article A realistic assessment of methods for extracting gene/protein interactions from free text Renata Kabiljo, Andrew B Clegg, Adrian J Shepherd BMC Bioinformatics 2009, 10:233 (28 July 2009) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	21.	Research article Novel methods for secondary structure determination using low wavelength (VUV) circular dichroism spectroscopic data Jonathan G Lees, Andrew J Miles, Robert W Janes, B A Wallace BMC Bioinformatics 2006, 7:507 (17 November 2006) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Optimised secondary structure prediction algorithms can use low wavelength data from the latest synchrotron radiation circular dichroism instruments, significantly improving the accuracy of structural predictions, especially for regions of beta-sheet.
	22.	Research article *Dimerization of inositol monophosphatase Mycobacterium tuberculosis* SuhB is not constitutive, but induced by binding of the activator Mg²⁺** Alistair K Brown, Guoyu Meng, Hemza Ghadbane, David J Scott, Lynn G Dover, Jérôme Nigou, Gurdyal S Besra, Klaus Fütterer BMC Structural Biology 2007, 7:55 (28 August 2007) Abstract \| Full text \| PDF \| PubMed
	23.	Research article *Donor substrate recognition in the raffinose-bound E342A mutant of fructosyltransferase Bacillus subtilis* levansucrase** Guoyu Meng, Klaus Fütterer BMC Structural Biology 2008, 8:16 (17 March 2008) Abstract \| Full text \| PDF \| PubMed
	24.	Research article Acanthamoeba produces disseminated infection in locusts and traverses the locust blood-brain barrier to invade the central nervous system Parisa N Mortazavi, Graham Goldsworthy, Ruth Kirk, Naveed A Khan BMC Microbiology 2010, 10:186 (8 July 2010) Abstract \| Full text \| PDF \| PubMed
	25.	Research article An intuitionistic approach to scoring DNA sequences against transcription factor binding site motifs Fernando Garcia-Alcalde, Armando Blanco, Adrian J Shepherd BMC Bioinformatics 2010, 11:551 (8 November 2010) Abstract \| Full text \| PDF \| PubMed