User:Daniel Swan

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Contact Info

Daniel Swan (an artistic interpretation)

Dr Daniel Swan

Head of Platforms and Pipelines at The Genome Analysis Centre (TGAC), Norwich, UK

Email me through OpenWetWare

Head of Platforms and Pipelines (P&P) at The Genome Analysis Centre (TGAC) in Norwich, UK

The P&P group provide the BBSRC National Capability in Genomics (NCG) and provide sequencing and genomics facilities to TGAC Science Faculty, NCG and other external customers. The group is split into 3 teams - a dedicated project management team, a high-throuhput laboratory team and bioinformatics team.

If you can think of a sequencing application, we've probably already done it. Plants, microbes and non-model organisms a speciality.

You can follow TGAC on Twitter: http://twitter.com/GenomeAnalysis

I occasionally blog here: http://metagenom.es

I tweet a bit more here: http://twitter.com/DrDanielSwan

Education

  • 2000, PhD, Imperial College - Developmental Biology
  • 1995, BSc(Hons), Manchester University - Genetics

Research interests

  1. Transcriptomics
  2. Systems Biology
  3. Neuroinformatics

Publications

  1. Werner A and Swan D. What are natural antisense transcripts good for?. Biochem Soc Trans. 2010 Aug;38(4):1144-9. DOI:10.1042/BST0381144 | PubMed ID:20659019 | HubMed [Paper17]
  2. Daniels DJ, Clothier C, Swan DC, and Saretzki G. Immediate and gradual gene expression changes in telomerase over-expressing fibroblasts. Biochem Biophys Res Commun. 2010 Aug 13;399(1):7-13. DOI:10.1016/j.bbrc.2010.07.018 | PubMed ID:20637725 | HubMed [Paper16]
  3. Varanasi SS, Olstad OK, Swan DC, Sanderson P, Gautvik VT, Reppe S, Francis RM, Gautvik KM, and Datta HK. Skeletal site-related variation in human trabecular bone transcriptome and signaling. PLoS One. 2010 May 18;5(5):e10692. DOI:10.1371/journal.pone.0010692 | PubMed ID:20502692 | HubMed [Paper15]
  4. Andrews E, Armstrong M, Tugwood J, Swan D, Glaves P, Pirmohamed M, Aithal GP, Wright MC, Day CP, and Daly AK. A role for the pregnane X receptor in flucloxacillin-induced liver injury. Hepatology. 2010 May;51(5):1656-64. DOI:10.1002/hep.23549 | PubMed ID:20222094 | HubMed [Paper14]
  5. Ince RA, Petersen RS, Swan DC, and Panzeri S. Python for information theoretic analysis of neural data. Front Neuroinform. 2009;3:4. DOI:10.3389/neuro.11.004.2009 | PubMed ID:19242557 | HubMed [Paper13]
  6. Carlile M, Swan D, Jackson K, Preston-Fayers K, Ballester B, Flicek P, and Werner A. Strand selective generation of endo-siRNAs from the Na/phosphate transporter gene Slc34a1 in murine tissues. Nucleic Acids Res. 2009 Apr;37(7):2274-82. DOI:10.1093/nar/gkp088 | PubMed ID:19237395 | HubMed [Paper12]
  7. Hong M, Ryan KR, Arkwright PD, Gennery AR, Costigan C, Dominguez M, Denning DW, McConnell V, Cant AJ, Abinun M, Spickett GP, Swan DC, Gillespie CS, Young DA, and Lilic D. Pattern recognition receptor expression is not impaired in patients with chronic mucocutanous candidiasis with or without autoimmune polyendocrinopathy candidiasis ectodermal dystrophy. Clin Exp Immunol. 2009 Apr;156(1):40-51. DOI:10.1111/j.1365-2249.2009.03873.x | PubMed ID:19196253 | HubMed [Paper11]
  8. Werner A, Carlile M, and Swan D. What do natural antisense transcripts regulate?. RNA Biol. 2009 Jan-Mar;6(1):43-8. PubMed ID:19098462 | HubMed [Paper10]
  9. Jackson KA, Valentine RA, McKay JA, Swan DC, Mathers JC, and Ford D. Analysis of differential gene-regulatory responses to zinc in human intestinal and placental cell lines. Br J Nutr. 2009 May;101(10):1474-83. DOI:10.1017/S0007114508094634 | PubMed ID:18947441 | HubMed [Paper9]
  10. Greenall A, Lei G, Swan DC, James K, Wang L, Peters H, Wipat A, Wilkinson DJ, and Lydall D. A genome wide analysis of the response to uncapped telomeres in budding yeast reveals a novel role for the NAD+ biosynthetic gene BNA2 in chromosome end protection. Genome Biol. 2008 Oct 1;9(10):R146. DOI:10.1186/gb-2008-9-10-r146 | PubMed ID:18828915 | HubMed [Paper8]
  11. Waterhouse JC, Swan DC, and Russell RR. Comparative genome hybridization of Streptococcus mutans strains. Oral Microbiol Immunol. 2007 Apr;22(2):103-10. DOI:10.1111/j.1399-302X.2007.00330.x | PubMed ID:17311633 | HubMed [Paper7]
  12. Field D, Tiwari B, Booth T, Houten S, Swan D, Bertrand N, and Thurston M. Open software for biologists: from famine to feast. Nat Biotechnol. 2006 Jul;24(7):801-3. DOI:10.1038/nbt0706-801 | PubMed ID:16841067 | HubMed [Paper6]
  13. Allotey RA, Mohan V, McDermott MF, Deepa R, Premalatha G, Hassan Z, Cassell PG, North BV, Vaxillaire M, Mein CA, Swan DC, O'Grady E, Ramachandran A, Snehalatha C, Sinnot PJ, Hemmatpour SK, Froguel P, and Hitman GA. The EIF2AK3 gene region and type I diabetes in subjects from South India. Genes Immun. 2004 Dec;5(8):648-52. DOI:10.1038/sj.gene.6364139 | PubMed ID:15483661 | HubMed [Paper5]
  14. Aganna E, Martinon F, Hawkins PN, Ross JB, Swan DC, Booth DR, Lachmann HJ, Bybee A, Gaudet R, Woo P, Feighery C, Cotter FE, Thome M, Hitman GA, Tschopp J, and McDermott MF. Association of mutations in the NALP3/CIAS1/PYPAF1 gene with a broad phenotype including recurrent fever, cold sensitivity, sensorineural deafness, and AA amyloidosis. Arthritis Rheum. 2002 Sep;46(9):2445-52. DOI:10.1002/art.10509 | PubMed ID:12355493 | HubMed [Paper4]
  15. Korbonits M, Gueorguiev M, O'Grady E, Lecoeur C, Swan DC, Mein CA, Weill J, Grossman AB, and Froguel P. A variation in the ghrelin gene increases weight and decreases insulin secretion in tall, obese children. J Clin Endocrinol Metab. 2002 Aug;87(8):4005-8. DOI:10.1210/jcem.87.8.8881 | PubMed ID:12161552 | HubMed [Paper3]
  16. Merry CL, Bullock SL, Swan DC, Backen AC, Lyon M, Beddington RS, Wilson VA, and Gallagher JT. The molecular phenotype of heparan sulfate in the Hs2st-/- mutant mouse. J Biol Chem. 2001 Sep 21;276(38):35429-34. DOI:10.1074/jbc.M100379200 | PubMed ID:11457822 | HubMed [Paper2]
  17. Episkopou V, Arkell R, Timmons PM, Walsh JJ, Andrew RL, and Swan D. Induction of the mammalian node requires Arkadia function in the extraembryonic lineages. Nature. 2001 Apr 12;410(6830):825-30. DOI:10.1038/35071095 | PubMed ID:11298452 | HubMed [Paper1]
All Medline abstracts: PubMed | HubMed

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