home>research>people>directory> Ian Castleden (Dr)

Dr Ian Castleden

  • Database/Systems Engineer, The University Of Western Australia
  • group: millar

Biography:

Looking at improving subcellular localisation predictions using Adaptive learning.

Research:

Scientific Databases. Plant organelle metabolic networks. Biological Query languages. Bayesian Neural networks. Potts models

Contact Info:

Year Publication Online
2021
David R, Menezes RD, De Klerk J, Castleden IR, Hooper CM, Carneiro G, Gilliham M (2021) Identifying protein subcellular localisation in scientific literature using bidirectional deep recurrent neural network. SCI REP 11(1):1696.
NCBI Pubmed DOI Link
2020
Gutmann B, Royan S, Schallenberg-Rüdinger M, Lenz H, Castleden IR, Mcdowell R, Vacher MA, Tonti-Filippini J, Bond CS, Knoop V, Small ID (2020) The Expansion and Diversification of Pentatricopeptide Repeat RNA-Editing Factors in Plants. Mol Plant 13(2):215-230.
NCBI Pubmed DOI Link
2020
Hooper CM, Castleden IR, Aryamanesh N, Black K, Grasso SV, Millar AH (2020) CropPAL for discovering divergence in protein subcellular location in crops to support strategies for molecular crop breeding. Plant J 104(3):812-827.
NCBI Pubmed DOI Link
2017
Hooper CM, Castleden IR, Tanz SK, Aryamanesh N, Millar AH (2017) SUBA4: the interactive data analysis centre for Arabidopsis subcellular protein locations. NUCLEIC ACIDS RES 45(D1):D1064-D1074.
NCBI Pubmed DOI Link
2017
Li L, Nelson CJ, Trösch J, Castleden I, Huang S, Millar AH (2017) Protein Degradation Rate in <i>Arabidopsis thaliana</i> Leaf Growth and Development. Plant Cell 29(2):207-228.
NCBI Pubmed DOI Link
2017
Hooper CM, Stevens TJ, Saukkonen A, Castleden IR, Singh P, Mann GW, Fabre B, Ito J, Deery MJ, Lilley KS, Petzold CJ, Millar AH, Heazlewood JL, Parsons HT (2017) Multiple marker abundance profiling: combining selected reaction monitoring and data-dependent acquisition for rapid estimation of organelle abundance in subcellular samples. Plant J 92(6):1202-1217.
NCBI Pubmed DOI Link
2016
Cheng S, Gutmann B, Zhong X, Ye Y, Fisher MF, Bai F, Castleden I, Song Y, Song B, Huang J, Liu X, Xu X, Lim BL, Bond CS, Yiu SM, Small I (2016) Redefining the structural motifs that determine RNA binding and RNA editing by pentatricopeptide repeat proteins in land plants. PLANT J. 85(4):532-47.
NCBI Pubmed DOI Link
2016
Hooper CM, Castleden IR, Aryamanesh N, Jacoby RP, Millar AH (2016) Finding the Subcellular Location of Barley, Wheat, Rice and Maize Proteins: The Compendium of Crop Proteins with Annotated Locations (cropPAL). Plant Cell Physiol 57(1):e9.
NCBI Pubmed DOI Link
2014
Taylor NL, Fenske R, Castleden I, Tomaz T, Nelson CJ, Millar AH (2014) Selected reaction monitoring to determine protein abundance in Arabidopsis using the Arabidopsis proteotypic predictor. Plant Physiol 164(2):525-36.
NCBI Pubmed DOI Link
2014
Tanz SK, Castleden I, Hooper CM, Small I, Millar AH (2014) Using the SUBcellular database for Arabidopsis proteins to localize the Deg protease family. FRONT PLANT SCI Aug 12;5:396.
NCBI Pubmed DOI Link
2014
Hooper CM, Tanz SK, Castleden IR, Vacher MA, Small ID, Millar AH (2014) SUBAcon: a consensus algorithm for unifying the subcellular localization data of the Arabidopsis proteome BIOINFORMATICS 1;30(23):3356-64.
NCBI Pubmed DOI Link
2013
Tanz SK, Castleden I, Hooper C, Vacher M, Small I, Millar AH (2013) SUBA3: a database for integrating experimentation and prediction to define the SUBcellular location of proteins in Arabidopsis NUCLEIC ACIDS RES 41(Database issue):D1185-91.
NCBI Pubmed DOI Link
2013
Tanz SK, Castleden I, Small ID, Millar AH (2013) Fluorescent protein tagging as a tool to define the subcellular distribution of proteins in plants. FRONT PLANT SCI 4:214.
NCBI Pubmed DOI Link
2013
Narsai R, Devenish J, Castleden I, Narsai K, Xu L, Shou H, Whelan J (2013) Rice DB: an Oryza Information Portal linking annotation, subcellular location, function, expression, regulation, and evolutionary information for rice and Arabidopsis. Plant J 76(6):1057-73.
NCBI Pubmed DOI Link
2011
Joshi HJ, Hirsch-Hoffmann M, Baerenfaller K, Gruissem W, Baginsky S, Schmidt R, Schulze WX, Sun Q, Van Wijk KJ, Egelhofer V, Wienkoop S, Weckwerth W, Bruley C, Rolland N, Toyoda T, Nakagami H, Jones AM, Briggs SP, Castleden I, Tanz SK, Millar AH, Heazlewood JL (2011) MASCP Gator: an aggregation portal for the visualization of Arabidopsis proteomics data. Plant Physiol 155(1):259-70.
NCBI Pubmed DOI Link
2010
Narsai R, Castleden I, Whelan J (2010) Common and distinct organ and stress responsive transcriptomic patterns in Oryza sativa and Arabidopsis thaliana. BMC Plant Biol 10:262.
NCBI Pubmed DOI Link
2009
Ito J, Taylor NL, Castleden I, Weckwerth W, Millar AH, Heazlewood JL (2009) A survey of the Arabidopsis thaliana mitochondrial phosphoproteome. Proteomics 9(17):4229-40.
NCBI Pubmed DOI Link
2008
Eubel H, Meyer EH, Taylor NL, Bussell JD, O'Toole N, Heazlewood JL, Castleden I, Small ID, Smith SM, Millar AH (2008) Novel proteins, putative membrane transporters, and an integrated metabolic network are revealed by quantitative proteomic analysis of Arabidopsis cell culture peroxisomes. Plant Physiol 148(4):1809-29.
NCBI Pubmed DOI Link
user id: 8