Peer Reviewed

2017

Fabre B, Korona K, Mata-Martine CI, Parsons HT, Deery MJ, Herto ML, Nicolaï BM, Russell S, Lilley KS (2017) Spectral libraries for SWATH-MS assays for Drosophila melanogaster and Solanum lycopersicum. Proteomics  doi: 10.1002/pmic.201700216 [PubMed]

 

2016

Fabre B, Korona D, Nightingale DJH, Russell S, Lilley KS (2016) SWATH-MS data of D. melanogaster proteome dynamics during embryogenesis. Data In Brief 9:771-775. [PubMed]

Fabre B, Korona D, Nightingale DJH, Russell S, Lilley KS (2016) Analysis of heat-shock treated Drosophila melanogaster embryos by SWATH-MS. Data In Brief 9:991-995

Niwa H, Nakamura A, Urata M, Shirae-Kurabayashi M, Kuraku S, Russell S, Ohtsuka S (2016) The evolutionally-conserved function of group B1 Sox family members confers the unique role of Sox2 in mouse ES cells. BMC Evol Biol. 16:173. [PubMed]

El-Sharnouby S, Fischer B, Magbanua JP, Umans B, Flower R, Choo SW, Russell S, White R. (2016) Regions of very low H3K27me3 partition the Drosophila genome into topological domains. PLoS One 12:e0172725 [PubMed]  bioRxiv

Fabre B, Korona D, Groen A, Vowinckel J, Gatto L, Deery MJ, Ralser M, Russell S, Lilley KS. (2016) Analysis of the Drosophila melanogaster proteome dynamics during the embryo early development by a combination of label-free proteomics approaches. Proteomics DOI: 10.1002/pmic.201500482. [PubMed]

Lee H, Cho DY, Whitworth C, Eisman R, Phelps M, Roote J, Kaufman T, Cook K, Russell S, Przytycka T, Oliver B. (2016) Effects of Gene Dose, Chromatin, and Network Topology on Expression in Drosophila melanogaster.  PLoS Genetics 12:e1006295 [PubMedbioRxiv http://dx.doi.org/10.1101/032920

Ching Yew Beh CY, El-Sharnouby S, Chatzipli A, Russell S, Choo SW, White R (2016) Roles of Cofactors and Chromatin Accessibility in Hox Protein Target Specificity. Epigenetics & Chromatin 9:1. [PubMed]

 

2015

Hammond A, Galizi R, Kyrou K, Simoni A, Siniscalchi C, Katsanos D, Gribble M, Baker D, Marois E, Russell S, Burt A, Windbichler N, Crisanti A, Nolan T. (2015) A CRISPR-Cas9 Gene Drive System Targeting Female Reproduction in the Malaria Mosquito vector Anopheles gambiae. Nat Biotech 34: 78-83 [PubMed]

Akbari OS, Bellen HJ, Bier E, Bullock SL, Burt A, Church GM, Cook KR, Duchek P, Edwards OR, Esvelt KM, Gantz VM, Gratz SJ, Golic KG, Harrison MM, Hayes KR, James AA, Kaufman TC, Knoblich J, Malik HS, Matthews KA, O’Connor-Giles KM, Parks AL, Perrimon N, Port F, Russell S, Ueda R, Wildonger J (2015) Safeguards for laboratory gene drive experiments. Science 349: 927-929. [PubMed]

Skalska L, Stojnic R, Li J, Fischer B, Cerda-Moya G, Sakai H, Tajbakhsh S, Russell S, Adryan B, Bray S. (2015) Analysis of chromatin states at Notch regulated genes reveals large scale changes in H3K56 acetylation accompany enhancer activation. EMBO J e201489923 [PubMed]

Carl SH, Russell S (2015) Common binding by redundant group B Sox proteins is evolutionarily conserved in Drosophila. BMC Genomics 16:292. [PubMed]

Magbanua JP, Runneburger E, Russell S, White R. (2015) A variably occupied CTCF site in the Ultrabithorax gene in the Drosophila Bithorax Complex. Mol. Cell. Biol. 35:p318-330 [PubMed]

 

2014

Lowe N, Rees JS, Roote J, Ryder E, Armean IM, Johnson G, Drummond E, Spriggs H, Drummond J, Magbanua JP, Naylor H, Sanson B, BastockR, Huelsmann S, Trovisco V, Landgraf M, Knowles-Barley S, Armstrong JD, White-Cooper H, Kyriacou C, the UK Drosophila protein trap screening consortium, Lilley KS, Russell S, St Johnston D. (2014) Analysis of the expression patterns, sub-cellular localisations and interaction partners of Drosophila proteins using a pigP protein trap library. Development 141: 3994-4005. [PubMed]

Choo, SW, Beh, CY, Russell S, White R. (2014) Characterisation of Drosophila Ubx-CPTI000601 and hth-CPTI000378 protein trap lines. The Scientific World J. 14: 191535. [PubMed]

Simoni A, Siniscalchi C, Chan YS, Huen DS, Russell S, Windbichler N, Crisanti, A (2014) Development of Synthetic Selfish Elements Based on Modular Nucleases in Drosophila melanogaster. Nucleic Acids Res. 42: 7461-7472 [PubMed]

Ferrero E, Fischer B, Russell S (2014) SoxNeuro orchestrates central nervous system specification and differentiation in Drosophila and is only partially redundant with Dichaete. Genome Biology 15:R74 [PubMed](Highly Accessed; Research Highlight: Genome Biol 2014 15:116) 

Neville, MC, Nojima T, Ashley E, Walker J, Southall T, Van de Sande B, Parker DJ, Marques AC, Fischer B, Ritchie MG, Brand AH, Russell S, Aerts S, Goodwin S. (2014) Male-Specific Fruitless Isoforms Target Neurodevelopmental Genes to Specify a Sexually Dimorphic Nervous System. Current Biology 24: 229-241. [PubMed]

 

2013

Favrin G, Bean DM, Bilsland E, Boyer H, Fischer B, Russell S, Crowther DC, Baylis HA, Oliver SG, Giannakou ME. (2013) Identification of novel modifiers of Aβ toxicity by transcriptomic analysis in the fruitfly. Scientific Reports 3: 3512.

Aleksic J, Fischer B, Ferrero E, Russell S. (2013) The role of Dichaete in transcriptional regulation during Drosophila embryonic development. BMC Genomics 14: 861 (Highly Accessed)

Chan YS, Takeuchi R, Jarjour J, Huen DS, Stoddart BL, Russell S. (2013) The design and in vivo evaluation of engineered I-OnuI-based enzymes for HEG gene drive. PLoS ONE 8: e74247.

Shen SP, Aleksic J, Russell S (2013) Identifying targets of the Sox domain protein Dichaete in the Drosophila CNS via targeted expression of dominant negative proteins. BMC Dev Biol 13: 1.

Chan YS, Huen, DS, Glauert R, Whitway E, Russell S (2013) Optimising homing endonuclease gene drive performance in a semi-refractory species: the Drosophila melanogaster experience. PLoS ONE 8: e54130.

Housden BE, Fu AQ, Krejci A, Bernard F, Fischer B, Tavaré S, Russell S, Bray SJ. (2013) Transcriptional dynamics elicited by a short pulse of Notch activation. PLoS Genetics 9:e1003162.

 

2012

Fu AQ, Russell S, Bray SJ, Tavaré S (2012) Bayesian clustering of replicated time-course gene expression data with weak signals Annal. Applied Stats. 7: p1334-1361. arXiv:1210.5029

Bossing T, Fischer B, Russell S, Shepherd D. (2012) Disruption of Microtubule Integrity Initiates Mitosis during CNS Repair. Dev. Cell 23: 433-440. (Preview Article KE Prehoda (2012) Dev Cell 23: 233-234)

Fischer B, Wasbrough E, Meadows LA, Randlet O, Dorus S, Karr TL, Russell S. (2012) Conserved properties of Drosophila and human spermatozoal mRNA repertoires. Proc. R. Soc. Lon. B. 279: 2636-2644

 

2011

Baker DA and Russell S (2011) The role of testis-specific versus somatic gene expression in the sex chromosome evolution of Anopheles gambiae. Genetics 189: 1117-1120.

Rees JS, Lowe N, Armean IM, Roote J, Johnson G, Drummond E, Spriggs H, Ryder E, Russell S, St Johnston D, Lilley KS (2011) In vivo analysis of proteomes and interactomes using parallel affinity capture (iPAC) coupled to mass spectrometry. Mol. Cell. Proteomics 10: M110.002386

Baker DA, Nolan T, Fischer B, Pinder A, Crisanti A, Russell S. (2011) A comprehensive atlas of tissue-specific expression in the malaria vector, Anopheles gambiae, reveals genes evolved for specialized feeding and mating behaviours. BMC Genomics 12: 296 (Highly Accessed & Commentary BMC Genomics 12: 297) Faculty of 1000

Sykacek P, Kreil DP, Meadows LA, Auburn RP, Fischer B, Russell S, Micklem G. (2011) The impact of quantitative microarray optimization on gene expression analysis. BMC Bioinformatics 12: p73 (Highly Accessed)

Chan YS, Naujoks, DA, Huen DS, Russell S (2011) Insect population control by homing endonuclease-based gene drive: an evaluation in Drosophila melanogaster. Genetics 188: p33-44.

Choo SW, White R, Russell S. (2011) Genome-wide analysis of the binding of the Hox protein Ultrabithorax and the Hox cofactor Homothorax in Drosophila. PLoS ONE 6: e14778

Nègre N, Brown CD, Ma L, Bristow CA, Miller SW, Wagner U, Kheradpour P, Eaton ML, Loriaux P, Sealfon R, Li R, Ishii H, Spokony RF, Chen J, Hwang L, Chen C, Auburn RP, Davis MP, Domanus M, Shah PK, Morrison CA, Zieba J, Suchy S, Senderowicz L, Victorsen A, Bild NA, Grundstad AJ, Hanley D, MacAlpine DM, Mannervik M, Venken K, Bellen H, White R, Gerstein M, Russell S, Grossman RL, Ren B, Posakony JW, Kellis M, White KP. (2011) A Cis-Regulatory Map of the Drosophila Genome. Nature 471: p527-531.

 

2010

Meadows LA, Chan YS, Roote J, Russell S. (2010) Neighbourhood continuity is not required for correct testis gene expression in Drosophila. PLoS Biology 8:e1000552. (Editors Pick of the week: PLoS Biol 8:e1001002)

The modENCODE Consortium, Roy S, Ernst J, Kharchenko PV, Kheradpour P, Negre N, Eaton ML, Landolin JM, Bristow CA, Ma L, Lin MF, Washietl S, Arshinoff BI, Ay F, Meyer PE, Robine N, Washington NL, Di Stefano L, Berezikov E, Brown CD, Candeias R, Carlson JW, Carr A, Jungreis I, Marbach D, Sealfon R, Tolstorukov MY, Will S, Alekseyenko A, Artieri C, Booth B, Brooks AN, Dai Q, Davis C, Duff M, Feng X, Gorchakov A, Gu T, Henikoff J, Kapranov P, Li R, MacAlpine H, Malone J, Minoda A, Nordman J, Okamura K, Perry M, Powell S, Riddle N, Sakai A, Samsonova A, Sandler J, Schwartz Y, Sher N, Spokony R, Sturgill D, van Baren M, Wan K, Yang L, Yu C, Feingold E, Good P, Guyer M, Lowdon R, Ahmad K, Andrews J, Berger B, Brenner SE, Brent M, Cherbas L, Elgin S, Gingeras T, Grossman R, Hoskins R, Kaufman T, Kent W, Kuroda M, Orr-Weaver T, Perrimon N, Pirrotta V, Posakony J, Ren B, Russell S, Cherbas P, Graveley BR, Lewis S, Micklem G, Oliver O, Park PJ, Celniker SE, Henikoff S, Karpen GH, Lai EC, MacAlpine DM, Stein LD, White KP, Kellis M. (2010) Identification of functional elements and regulatory circuits in Drosophila modENCODE. Science 330: p1787-1797.

Huen D and Russell S. (2010) On the use of resampling tests for evaluating statistical significance of binding-site co-occurrence. BMC Bioinformatics 11: 359

Cossais F, Sock E, Hornig J, Schreiner S, Kellerer S, Bösl MR, Russell S Wegner M. (2010) Replacement of mouse Sox10 by the Drosophila ortholog Sox100B provides evidence for co-option of SoxE proteins into vertebrate specific gene-regulatory networks through altered expression Dev. Biol. 341: p267-281

Kosík O, Auburn RP, Russell S, Hrmova M, Schols H and V Farkaš. (2010) Screening for transglycosylase activities in crude plant extracts with polysaccharide microarrays. Glycoconjugate J 27: p79-87

Nègre N, Brown CD, Shah PK, Kheradpour P, Morrison CA, Henikoff JG, Feng X, Ahmad K, Russell S, White RAH, Stein L, Henikoff S, Kellis M and KP White (2010) A comprehensive map of insulator elements for the Drosophila genome. PLoS Genet. 6: e1000814.

 

2009

Baker DA, and S Russell. (2009) Gene expression during Drosophila melanogaster egg development before and after reproductive diapause. BMC Genomics 10: 242. (Highly Accessed)

Aleksic J, Lazic R, Müller I, Russell S and B Adryan. (2009) Biases in Drosophila melanogaster protein trap screens. BMC Genomics 10: 249

Ryder E, Spriggs H, Drummond E, St. Johnston D and S Russell. (2009) The Flannotator – a gene and protein expression annotation tool for Drosophila melanogaster. Bioinformatics. 25:p548-549

Nanda S, Defalco TJ, Hui Yong Loh S, Phochanukul N, Camara N, Van Doren M and S Russell. (2009) Sox100B, a Drosophila group E Sox-domain gene, is required for somatic testis differentiation. Sexual Dev. 3:p26-37

 

2008

Kwong C, Adryan B, Bell I, Meadows L, Russell S, Manak JR, White R. (2008) Stability and dynamics of Polycomb target sites in Drosophila development. PLoS Genet. 4:e1000178.

 

2007

Baker DA, Meadows LA, Wang J, Dow JAT and S Russell (2007) Variable sexually dimorphic gene-expression in laboratory strains of Drosophila melanogaster. BMC Genomics 8:454.

Ryder E, Ashburner M, Bautista-Llacer R, Drummond J, Webster J, Johnson G, Morley T, Sang Chan Y, Blows F, Coulson D, Reuter G, Baisch H, Apelt C, Kauk A, Rudolph T, Kube M, Klimm M, Nickel C, Szidonya J, Maróy P, Pal M, Rasmuson-Lestander Å, Ekström K, Stocker H, Hugentobler C, Hafen E, Gubb D, Pflugfelder G, Dorner C, Mechler B, Schenkel H, Marhold J, Serras F, Corominas M, Punset A, Roote J and S Russell. (2007) The DrosDel Deletion Collection: A Drosophila Genome-Wide Chromosomal Deficiency Resource. Genetics 177: p615-629 (Journal Cover).

Adryan B, Woerfel G, Birch-Machin I, Gao S, Quick M, Meadows L, Russell S and R White. (2007) Genomic mapping of Suppressor of Hairy-wing binding sites in Drosophila. Genome Biol. 8:R167. (Highly Accessed)

Holohan EE, Kwong C, Adryan B, Bartkuhn M, Herold M, Renkawitz R, Russell S and R White. (2007) CTCF Genomic Binding Sites in Drosophila and the Organisation of the Bithorax Complex. PLoS Genetics. 3:e112

Samsonova AA, Niranjan M, Russell S and A Brazma. (2007) Prediction of gene expression in embryonic structures of Drosophila melanogaster. PLoS Comp. Biol. 3:e144

Lyne R, Smith R, Rutherford K, Wakeling, Varley A, Gullier F, Janssens H, Wenyan J, McLaren P, North P, Rana D, Riley T, Sullivan J, Watkins X, Woodbridge M, Lilley K, Russell S, Ashburner M, Mizguchi K and G Micklem (2007) FlyMine: An integrated database for Drosophila and Anopheles genomics. Genome Biol. 8:R129.

 

2006

Auburn RP, Russell RR, Fischer B, Meadows LA, Matilla SS and S Russell (2006) SimaArray: a user-friendly and user-configurable microarray design tool. BMC Bioinformatics. 7:102

Ryder EJ, Jackson R, Ferguson-Smith A and S Russell. (2006) MAMMOT – a set of tools for the design, management and visualisation of genomic tiling arrays. Bioinformatics. 22: p883-884.

 

2005

Page AR, Kovacs A, Deak P, Torok T, Kiss I, Dario P, Bastos C, Batista P, Gomes R, Ohkura H, Russell S and DM Glover. (2005) Spotted-dick, a zinc-finger protein of Drosophila required for expression of Orc4 and S phase. EMBO J. 24: p4304-4315.

External RNA Controls Consortium (2005) Proposed methods for testing and selecting the ERCC external RNA controls. BMC Genomics 6: p150.

McKimmie C, Woerfel G and S Russell (2005) Conserved genomic organization of group B Sox genes in insects. BMC Genetics. 6: p26.

Birch-Machin I, Shan Gao Huen D, McGirr R, White RAH and S Russell (2005) Genomic Analysis of Heat Shock Factor Targets in Drosophila. Genome Biology 6: pR63.

 

2004

Ryder E, Blows F, Ashburner M, Bautista-Llacer R, Coulson D, Drummond J, Webster J, Gubb D, Gunton N, Johnson G, O’Kane CJ, Huen D, Sharma P, Astalos Z, Baisch H, Schulze, Kube M, Kittlaus K, Reuter G, Maroy P, Szidonya J, Rasmuson-Lestander A, Ekstrom K, Dickson B, Hugentobler C, Stocker H, Hafer E, Lepesant JA, Pflugfelder G, Heisenberg M, Mechler B, Serras F, Corominas M, Schneuwly S, Preat T, Roote J and S Russell. (2004) The DrosDel collection: a set of P-elements insertions for generation custom chromosome aberration in Drosophila melanogaster. Genetics 167: p797-813.

 

2003

DeFalco, T, Verney G, Jenkins A, McCaffery M, Russell S and M Van Doren. (2003) Sex-specific apoptosis regulates sexual dimorphism in the Drosophila embryonic gonad. Developmental Cell 5: 205-216.

Whitworth AJ and S Russell. (2003) Temporally dynamic response to Wingless directs the sequential elaboration of the proximodistal axis of the Drosophila wing. Dev Biol 254: 277-288

 

2002

Overton PM, Meadows LA, Urban J and S Russell. (2002) Evidence for differential and redundant function of the Sox genes Dichaete and SoxN during CNS development in Drosophila. Development 129: 4219-4228 (Nature Rev. Neuro. Research Highlight)

 

2000

Russell S. (2000) The Drosophila dominant wing mutation Dichaete results from ectopic expression of a Sox-domain gene. Mol. Gen. Genet 263: 690-701.

Loh SHY and S Russell (2000) A Drosophila Sox9 related gene dynamically expressed in the embryonic alimentary canal and malphigian tubules. Mech Dev 93: 185-188

Sanchez Soriano N. and S Russell (2000) Regulatory mutations of the Drosophila Sox gene Dichaete reveal new functions in embryonic brain and hindgut development. Dev Biol 220: 307-321.

 

1999

Stowers RS, S Russell and D Garza (1999) The 82F late puff contains the L82 gene, an essential member of a novel gene family. Dev Biol  213: 116-130

 

1998

Sanchez Soriano N and S Russell (1998). The Drosophila SOX-domain protein Dichaete is required for the development of the central nervous system midline. Development 125: 3989-3996.

 

1997

Goodwin SF, M Del Vecchio, K Velinzon, C Hogel, SRH Russell, T Tully and K Kaiser. (1997). Defective learning in mutants of the Drosophila gene for a regulatory subunit of cAMP-dependent protein kinase. J. Neurosci. 17: 8817-8827.

 

1996

Russell SRH, N Sanchez Soriano, CR Wright and M Ashburner (1996). The Dichaete gene of Drosophila melanogaster encodes a SOX-domain protein required for embryonic segmentation. Development. 122: 3669-3676.

Russell SRH, G Heimbeck, C M Goddard, ATC Carpenter and M Ashburner. (1996). The Drosophila Eip78C gene is not vital but has a role in regulating chromosome puffs. Genetics. 144:159-170.

 

1994

Russell SRH and K Kaiser. (1994). A Drosophila melanogaster chromosome 2L repeat is expressed in the male germ line. Chromosoma 103:63-72.

 

1993

Bevan C, Roote J, Russell S, Ashburner M. (1993) On the allelism of killer-of-male and male-specific-lethal mutations. D. I. S. 72:125

Russell SRH and K Kaiser. (1993). Drosophila melanogaster male germ line-specific transcripts with Autosomal and Y-linked genes. Genetics 134:293-308.