New selected normalisation papers:

Evaluation of Normalization Strategies Used in Real-Time Quantitative PCR Experiments in HepaRG Cell Line Studies.
Ceelen L, De Craene J, De Spiegelaere W.
Pathlicon nv, Evergem, Belgium
Clin Chem. 2013 Sep 11. (Epub ahead of print)

Reference genes in real-time PCR
Bartlomiej Kozera & Marcin Rapacz
J Appl Genet. 2013 Sep 28. (Epub ahead of print)

A critique of widely used normalization software tools and an alternative method to identify reliable reference genes in red clover (Trifolium pratense L.)
Khosro Mehdi Khanlou and Erik Van Bockstaele
Planta. 2012 Nov;236(5): 1381-1393

Jelena Nestorov1, Gordana Mati1, Ivana Elakovi1, Nikola Tani2
1 Department of Biochemistry
2 Department of Neurobiology, Institute for Biological Research, University of Belgrade, Belgrade, Serbia
J Med Biochem 32: 325–338, 2013 (Review article)

Application of qRT-PCR and RNA-Seq analysis for the identification of housekeeping genes useful for normalization of gene expression values during hermonthica development
M. Fernadez-Aparicio, K. Huang, E. K. Wafula, A. Honaas, N. J. Wickett, M. P. Timko, C. W. dePamphilis, J. I. Yoder, J H. Westwood
Mol Biol Rep (2013) 40:3395–3407

Read_qPCR and Norm_qPCR: R packages for the reading, quality checking and normalisation of RT-qPCR quantification cycle (Cq) data.
Perkins JR, Dawes JM, McMahon SB, Bennett DL, Orengo C, Kohl M.
BMC Genomics. 2012 Jul 2;13: 296

Selection of novel reference genes for use in the human central nervous system: a BrainNet Europe Study.
Durrenberger PF, Fernando FS, Magliozzi R, Kashefi SN, Bonnert TP, Ferrer I, Seilhean D, Nait-Oumesmar B, Schmitt A, Gebicke-Haerter PJ, Falkai P, Grünblatt E, Palkovits M, Parchi P, Capellari S, Arzberger T, Kretzschmar H, Roncaroli F, Dexter DT, Reynolds R.
Wolfson Neuroscience Laboratories, Division of Brain Sciences, Imperial College London, Hammersmith Hospital Campus, London, UK.
Acta Neuropathol. 2012 Dec;124(6): 893-903

Mixed modeling and sample size calculations for identifying housekeeping genes
Hongying Dai, Richard Charnigo, Carrie A. Vyhlidal, Bridgette L. Jonesc and Madhusudan Bhandary
Statist. Med. 2013

Gene-family profiling: a normalization-free real-time RT-PCR approach with increased physiological resolution
Stian Ellefsen and Kare-Olav Stenslokken
1 Lillehammer University College, Lillehamme
2 Institute of Clinical Medicine, and 3Department of Molecular Biosciences, University of Oslo, Oslo, Norway
Physiol Genomics 42: 1–4, 2010

A Novel Strategy for Selection and Validation of Reference Genes in Dynamic Multidimensional Experimental Design in Yeast
Ayca Cankorur-Cetinkaya, Elif Dereli, Serpil Eraslan, Erkan Karabekmez, Duygu Dikicioglu, Betul Kirdar
Department of Chemical Engineering, Bogazici University, Bebek, Istanbul, Turkey
PLoS ONE, 2012, Volume 7, Issue 6, e38351

A simple analytical and experimental procedure for selection of reference genes for reverse-transcription quantitative PCR normalization data
R. Manjarin, N. L. Trottier, P. S. Weber, J. S. Liesman, N. P. Taylor, and J. P. Steibel
Department of Animal Science,
Department of Large Animal Clinical Sciences, and
Department of Fisheries and Wildlife, Michigan State University, East Lansing 48824
J. Dairy Sci. 94 :4950–4961

NORMA-Gene: A simple and robust method for qPCR normalization based on target gene data
Lars-Henrik Heckmann, Peter B Sørensen, Paul Henning Krogh and Jesper G Sørensen
National Environmental Research Institute, Aarhus University, Department of Terrestrial Ecology, Vejlsøvej 25, DK-8600 Silkeborg, Denmark
BMC Bioinformatics 2011, 12: 250

Accurate RT-qPCR gene expression analysis on cell culture lysates
Gert Van Peer, Pieter Mestdagh & Jo Vandesompele

RefGenes: identification of reliable and condition specific reference genes for RT-qPCR data normalization.
Hruz T, Wyss M, Docquier M, Pfaffl MW, Masanetz S, Borghi L, Verbrugghe P, Kalaydjieva L, Bleuler S, Laule O, Descombes P, Gruissem W, Zimmermann P.
BMC Genomics. 2011 Mar 21;12(1):156.

Identification of suitable reference genes for normalization of qPCR data in comparative transcriptomics analyses in the Triticeae
Marıa J. Gimenez, Fernando Piston, Sergio G. Atienza
Planta. 2011 233(1):163-73.

Evaluation of suitable reference genes for normalization of real-time reverse transcription PCR analysis in colon cancer
Lise Aa Sorby, Solveig N Andersen, Ida RK Bukholm, Morten B Jacobsen
Journal of Experimental & Clinical Cancer Research 2010, 29:144

Tissue-specific disallowance of housekeeping genes: The other face of cell differentiation
Lieven Thorrez, Ilaria Laudadio, Katrijn Van Deun, Roel Quintens, Nico Hendrickx, Mikaela Granvik, Katleen Lemaire, Anica Schraenen, Leentje Van Lommel, Stefan Lehnert, Cristina Aguayo-Mazzucato, Rui Cheng-Xue, Patrick Gilon, Iven Van Mechelen, Susan Bonner-Weir, Fre´de´ric Lemaigre, and Frans Schuit
Genome Research 2011 21:95–105

Robust RT-qPCR Data Normalization: Validation and Selection of Internal Reference Genes during Post-Experimental Data Analysis
Daijun Ling, Paul M. Salvaterra
PLoS ONE 2011 6(3): e17762.

Identification of genes for normalization of quantitative real-time PCR data in ovarian tissues
Jie Fu, Lihong Bian, Li Zhao, Zhouhuan Dong, Xin Gao, Haofei Luan, Yunjuan Sun, and Haifeng Song
Acta Biochim Biophys Sin (2010): 1–7

A pipeline to determine RT-QPCR control genes for evolutionary studies: application to primate gene expression across multiple tissues.
Fedrigo O, Warner LR, Pfefferle AD, Babbitt CC, Cruz-Gordillo P, Wray GA.
PLoS One. 2010 5(9). pii: e12545.

Selection of reference genes for quantitative polymerase chain reaction studies in purified B cells from B cell chronic lymphocytic leukaemia patients.
Valceckiene V, Kontenyte R, Jakubauskas A, Griskevicius L.
Br J Haematol. 2010 Nov;151(3):232-8.

Validation of rat reference genes for improved quantitative gene expression analysis using low density arrays
Jenny Hong Cai, Shibing Deng, Steven W. Kumpf, Patricia A. Lee, Panayiotis Zagouras, Anne Ryan, and Dan S. Gallagher
BioTechniques 2010 42:503-512

Identification of suitable internal control genes for expression studies in Coffea arabica under different experimental conditions.
Barsalobres-Cavallari CF, Severino FE, Maluf MP, Maia IG.
BMC Mol Biol. 2009 Jan 6;10:1

Selection of reliable reference genes for gene expression studies in peach using real-time PCR
Zhaoguo Tong, Zhihong Gao, Fei Wang, Jun Zhou and Zhen Zhang
BMC Molecular Biology 2009, 10:71

Evaluation of reference genes for studies of gene expression in the bovine liver, kidney, pituitary, and thyroid
Pawe Lisowski, Mariusz Pierzcha, Joanna Gooecik, Chandra S. Pareek, Lech Zwierzchowski
J Appl Genet 49(4), 2008, pp. 367–37

Data-driven normalization strategies for high-throughput quantitative RT-PCR
Jessica C Mar, Yasumasa Kimura, Kate Schroder, Katharine M Irvine, Yoshihide Hayashizaki, Harukazu Suzuki, David Hume and John Quackenbush
BMC Bioinformatics 2009, 10:110

An abundance of ubiquitously expressed genes revealed by tissue transcriptome sequence data.
Ramsköld D, Wang ET, Burge CB, Sandberg R.
PLoS Comput Biol. 2009 5(12):e1000598

'Desperate house genes': the dramatic example of hypoxia.
Caradec J, Sirab N, Keumeugni C, Moutereau S, Chimingqi M, Matar C, Revaud D, Bah M, Manivet P, Conti M, Loric S.
Br J Cancer. 2010 Mar 16;102(6):1037-43. Epub 2010 Feb 23.

Reference gene alternatives to Gapdh in rodent and human heart failure gene expression studies.

Brattelid T, Winer LH, Levy FO, Liestøl K, Sejersted OM, Andersson KB.
BMC Mol Biol. 2010 Mar 23;11:22.

Genomic selection of reference genes for real-time PCR in human myocardium.
Pilbrow AP, Ellmers LJ, Black MA, Moravec CS, Sweet WE, Troughton RW, Richards AM, Frampton CM, Cameron VA.
BMC Med Genomics. 2008 Dec 29;1:64.

Selection of internal control genes for quantitative real-time RT-PCR studies during tomato development process.

Expósito-Rodríguez M, Borges AA, Borges-Pérez A, Pérez JA.
BMC Plant Biol. 2008 Dec 22;8:131.

Validation of putative reference genes for gene expression studies in human hepatocellular carcinoma using real-time quantitative RT-PCR.
Cicinnati VR, Shen Q, Sotiropoulos GC, Radtke A, Gerken G, Beckebaum S.
BMC Cancer. 2008 8:350.

Characterization of housekeeping genes in zebrafish: male-female differences and effects of tissue type, developmental stage and chemical treatment.
McCurley AT, Callard GV.
BMC Mol Biol. 2008 9:102.

Optimisation of region-specific reference gene selection and relative gene expression analysis methods for pre-clinical trials of Huntington's disease.
Benn CL, Fox H, Bates GP.
Mol Neurodegener. 2008 3:17.

The lack of a systematic validation of reference genes:  a serious pitfall undervalued in reverse transcription-polymerase chain reaction (RT-PCR) analysis in plants.
Gutierrez L, Mauriat M, Guénin S, Pelloux J, Lefebvre JF, Louvet R, Rusterucci C, Moritz T, Guerineau F, Bellini C, Van Wuytswinkel O.
Plant Biotechnol J. 2008 6(6):609-18

Normalization of qRT-PCR data: the necessity of adopting a systematic, experimental conditions-specific, validation of references.
Guénin S, Mauriat M, Pelloux J, Van Wuytswinkel O, Bellini C, Gutierrez L.
J Exp Bot. 2009 60(2):487-93. Review

Selection of optimal reference genes for normalization in quantitative RT-PCR.

Chervoneva I, Li Y, Schulz S, Croker S, Wilson C, Waldman SA, Hyslop T.
BMC Bioinformatics. 2010 11:253.

Validation of the comparative quantification method of real-time PCR analysis and a cautionary tale of housekeeping gene selection
Richard D. McCurdy, John J. McGrath, Alan Mackay-Sim
Gene Ther Mol Biol Vol 12, 15-24, 2008

Gene expression results in lipopolysaccharide-stimulated monocytes depend significantly on the choice of reference genes.
Piehler AP, Grimholt RM, Ovstebø R, Berg JP.
BMC Immunol. 2010 11:21.

Selection of housekeeping genes for use in quantitative reverse transcription PCR assays on the murine cornea.
Shengwei Ren, Feng Zhang, Changyou Li, Changkai Jia, Siyuan Li, Haijie Xi, Hongbo Zhang, Lingling Yang, Yiqiang Wang
Molecular Vision 2010; 16:1076-1086