Gene expression profiling of two distinct neuronal populations in the rodent spinal cord

PLoS ONE

Volumn 3, Issue 10, 2008, Pages

  Ryge, Jesper ^a   Westerdahl, Ann Charlotte ^a   Alstøm, Preben ^b   Kiehn, Ole ^a  

^a KAROLINSKA INSTITUTE   (Sweden)

^b CORE A/S ^*  (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

ADRENERGIC RECEPTOR; AMINO ACID TRANSPORTER; APOLIPOPROTEIN E; CALCITONIN GENE RELATED PEPTIDE; CALMODULIN BINDING PROTEIN; CARRIER PROTEIN; FRACTALKINE; GAMMA SYNUCLEIN; GENE PRODUCT; HEAT SHOCK PROTEIN; MESSENGER RNA; NEUROFILAMENT PROTEIN; NEUROPEPTIDE Y; NEUROPILIN 1; NEUROTROPHIN RECEPTOR P75; OREXIN 2 RECEPTOR; PENTRAXIN; POTASSIUM CHANNEL KV1.1; PROENKEPHALIN; PROTEIN KINASE C BETA; SEROTONIN 3 RECEPTOR; SOMATOMEDIN BINDING PROTEIN 5; STAT3 PROTEIN; SYNAPSIN; SYNAPTOTAGMIN II; TRANSFORMING GROWTH FACTOR BETA3; TRANSGELIN;

ANIMAL CELL; ARTICLE; BRAIN FUNCTION; CELL HYBRIDIZATION; CELL LABELING; CELL POPULATION; CONTROLLED STUDY; FLUORESCENCE ANALYSIS; GENE AMPLIFICATION; GENE EXPRESSION PROFILING; GENE ISOLATION; INTERNEURON; MICROARRAY ANALYSIS; MICRODISSECTION; MOTONEURON; MOTOR ACTIVITY; MOTOR CONTROL; NEUROSCIENCE; NEWBORN; NONHUMAN; NUCLEOTIDE SEQUENCE; RAT; SPINAL CORD NERVE CELL; UNINDEXED SEQUENCE; ANIMAL; CYTOLOGY; DNA MICROARRAY; METABOLISM; METHODOLOGY; NERVE CELL; SPINAL CORD;

RATTUS; RODENTIA;

ANIMALS; ANIMALS, NEWBORN; GENE EXPRESSION PROFILING; INTERNEURONS; MOTOR NEURONS; NEURONS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; RATS; SPINAL CORD;

EID: 54849426209     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0003415     Document Type: Article

References (112)

1. Diaz E (2006) A functional genomics guide to the galaxy of neuronal cell types. Nat Neurosci 9: 10-12.
2. Shoemaker DD, Linsley PS (9002) Recent developments in DNA microarrays. Curr Opin Microbiol 5: 334-337.
3. Nelson SB, Hempel C, Sugino K (2006) Probing the transcriptome of neuronal cell types. Curr Opin Neurobiol 16: 571-576.
4. Nelson SB, Sugino K, Hempel CM (2006) The problem of neuronal cell types: a physiological genomics approach. Trends Neurosci 29: 339-345.
5. Cui D, Dougherty KJ, Machacek DW, Sawchuk M, Hochman S, et al. (2006) Divergence between motoneurons: gene expression profiling provides a molecular characterization of functionally discrete somatic and autonomic motoneurons. Physiol Genomics 24: 276-289.
6. Sugino K, Hempel CM, Miller MN, Hattox AM, Shapiro P, et al. (2006) Molecular taxonomy of major neuronal classes in the adult mouse forebrain. Nat Neurosci 9: 99-107.
7. Arlotta P, Molyneaux BJ, Chen J, Inoue J, Kominami R, et al. (2005) Neuronal subtype-specific genes that control corticospinal motor neuron development in vivo. Neuron 45: 207-221.
8. Ferraiuolo L, Heath PR, Holden H, Kasher P, Kirby J, et al. (2007) Microarray analysis of the cellular pathways involved in the adaptation to and progression of motor neuron injury in the SODI G93A mouse model of familial ALS. J Neurosci 27: 9201-9219.
9. Kiehn (2006) Locomotor circuit in the mammalian spinal cord. Annu Rev Neurosci 29: 279-306.
10. Bertrand S, Cazalets JR (2002) The respective contribution of lumbar segments to the generation of locomotion in the isolated spinal cord of newborn rat. Eur J Neurosci 16: 1741-1750.
11. Jordan LM, Schmidt BJ (2002) Propriospinal neurons involved in the control of locomotion potential targets for repair strategies? Prog Brain Res 137: 125-139.
12. Nishimaru H, Kudo N (2000) Formation of the central pattern generator for locomotion in the rat and mouse. Brain Res Bull 53: 661-669.
13. Stokke MF, Nissen UV, Glover JC, Kiehn O (2002) Projection patterns of commissural interneurons in the lumbar spinal cord of the neonatal rat. J Comp Neurol 446: 349-359.
14. Butt SJ, Harris-Warrick RM, Kiehn O (2002) Firing properties of identified inter neuron population in the mammalian hindlimb central pattern generator. J Neurosci 22: 9961-9971.
15. Butt SJ, Kiehn O (2003) Functional identification of interneurons responsible for left-right coordination of hindlimb in mammals. Neuron 38: 953-963.
16. Jankowska E, Edgley SA (2006) How can corticospinal tract neuron contribute to ipsilateral movements? A question with implications for recovery of motor functions. Neuroscientist 12: 67-79.
17. Jankowska E, Hammar I, Slawinska U, Maleszak K, Edgley SA (2003) Neuronal basis of crossed actions from the reticular formation on feline hindlimb motoneurons. J Neurosci 23: 1857-1878.
18. Smyth GK (2004) Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 3: Article3.
19. Baldi P, Long AD (2001) A Bayesian framework for the analysis of microarray expression data: regularized t-test and statistical inferences of gene changes. Bioinformatics 17: 509-519.
20. Tusher VG, Tibshirani R, Chu G (2001) Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci U S A 98: 5116-5121.
21. Glover JC, Petursdottir G, Jansen JK (1986) Fluorescent dextran-amines used as axonal tracers in the nervous system of the chicken embryo. J Neurosci Methods 18: 243-254.
22. Bolstad BM, Irizarry RA, Astrand M, Speed TP (2003) A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 19: 185-193.
23. Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Statist Soc B 57: 289-300.
24. Mori K, Muro Y, Kokuzawa J, Yoshioka T, Yoshimura S, et al. (2004) Neuronal protein NP25 interacts with F-actin. Neurosci Res 48: 439-446.
25. Ren WZ, Ng GY, Wang RX, Wu PH, O'Dowd BF, et al. (1994) The identification of NP25: a novel protein that is differentially expressed by neuronal subpopulations. Brain Res Mol Brain Res 22: 173-185.
26. Rekling JC, Funk GD, Bayliss DA, Dong XW, Feldman JL (2000) Synaptic control of motoneuronal excitability. Physiol Rev 80: 767-852.
27. Nishimaru H, Restrepo CE, Ryge J, Yanagawa Y, Kiehn O (2005) Mammalian motor neurons corelease glutamate and acetylcholine at central synapses. Proc Natl Acad Sci U S A 102: 5245-5249.
28. Julien JP, Couillard-Despres S, Meier J (1998) Transgenic mice in the study of ALS: the role of neurofilaments. Brain pathol 8: 759-769.
29. Ninkina N, Papachroni K, Robertson DC, Schmidt O, Delaney L, et al. (2003) Neurons expressing the highest levels of gamma-synuclein are unaffected by targeted inactivation of the gene. Mol Cell Biol 23: 8233-8245.
30. Ackerley S, James PA, Kalli A, French S, Davies KE, et al. (2006) A mutation in the small heat-shock protein HSPB1 leading to distal hereditary motor neuronopathy disrupts neurofilament asembly, and the axonal transport of specific cellular cargoes. Hum Mol Genet 15: 347-354.
31. Plumier JC, Hopkins DA, Robertson HA, Currie RW (1997) Constitutive expression of the 27-kDa heat shock protein (Hsp27) in sensory and motor neurons of the rat nervous system. J Comp Neurol 384: 409-428.
32. Toepfer M, Fischer P, Abicht A, Lochmuller H, Pongratz D, et al. (1999) Localization of transforming growth factor beta in association with neuromuscular junctions in adult human muscle. Cell Mol Neurobiol 19: 297-300.
33. Lindholm T, Skold MK, Suneson A, Carlstedt T, Cullheim S, et al. (2004) Semaphorin and neuropilin expression in motoneurons after intraspinal motoneuron axotomy. Neuroreport 15: 649-654.
34. Samigullin D, Bill CA, Coleman WL, Bykhovskaia M (2004) Regulation of transmitter release by synapsin II in moose motor terminals J Physiol 561: 149-158.
35. Campagna JA, Prevette D, Oppenheim RW, Bixby JL (1997) Target contact regulates expression of synaptotagmin genes in spinal motor neurons in vivo. Mol Cell Neurosci 8: 377-388.
36. Coleman SK, Newcombe J, Pryke J, Dolly JO (1999) Subunit composition of Kvl channels in human CNS. J Neorochem 73: 849-658.
37. Rasband MN, Trimmer JS (2001) Subunit composition and novel localization of K+ channels in spinal cord. J Comp Neurol 429: 166-176.
38. Zhou L, Zhang CL, Messing A, Chiu SY (1998) Temperature-sensitive neuromuscular transmission in Kv1.1 null mice: role of potassium channels under the myelin sheath in young nerves. J Neurosci 18: 7200-7215.
39. Schutz B, Mauer D, Salmon AM, Changeux JP, Zimmer A (2004) Analysis of the cellular expression pattern of beta-CGRP in alpha-CGRP-deficient mice. J Comp Neurol 476: 32-43.
40. Wilczak N, de Vos RA, De Keyser J (2003) Free insulin-like growth factor (1GF)-I and IGF binding proteins 2, 5, and 6 in spinal motor neurons in amyotrophic lateral sclerosis. Lancet 361: 1007-1011.
41. Wiese S, Metzger F, Holtmann B, Sendtner M (1999) The role of p75NTR in modulating neurotrophin survival effects in developing motoneurons. Eur J Neurosci 11: 1668-1676.
42. Schweizer U, Gunnersen J, Karch C, Wiese S, Holtmann B, et al. (2002) Conditional gene ablation of Stat3 reveals differential signaling requirements for survival of motoneurons during development and after nerve injury in the adult J Cell Biol 156: 287-297.
43. Restrepo CE, Lundfald L, Glover JC, Kiehn O (2005) NEUROTRANSMITTER PHENOTYPE OF COMMISSURAL INTERNEURONS IN NEONATAL RODENTS. abstract, Society for Neuroscience Program No. 749.1.
44. Lanuza GM, Gosgnach S, Pierani A, Jessell TM, Goulding M (2004) Genetic identification of spinal interneurons that coordinate left-right locomotor activity necessary for walking movements. Neuron 42: 375-386.
45. Schmidt BJ, Jordan LM (2000) The role of serotonin in reflex modulation and locomotor rhythm production in the mammalian spinal cord. Brain Res Bull 53: 689-710.
46. Wallis K, Sjogren M, van Hogerlinden M, Silberberg G, Fisahn A, et al. (2008) Locomotor deficiencies and aberrant development of subtype-specific GABAergic interneurons caused by an unliganded thyroid hormone receptor alpha1. J Neurosci 28: 1904-1915.
47. Dumoulin A, Rostaing P, Bedet C, Levi S, Isambert MF, et al. (1999) Presence of the vesicular inhibitory amino acid transporter in GABAergic and glycinergic synaptic terminal boutons. J Cell Sci 112 (Pt 6): 811-823.
48. Schousboe A (2000) Pharmacological and functional characterization of astrocytic GABA transport: a short review. Neurochem Res 25: 1241-1244.
49. Quinlan KA, Kiehn O (2007) Segmental, synaptic actions of commisural interneurons in the mouse spinal cord. J Neurosci 27: 6521-6530.
50. Nagao S, Kwak S, Kanazawa I (1997) EAAT4, a glutamate transporter with properties of a chloride channel, is predominantly localized in Purkinje cell dendrites, and forms parasagittal compartments in rat cerebellum Neuroscience 78: 929-933.
51. Robinson D, Ellenberger H (1997) Distribution of N-methyl-D-aspartate and non-N-methyl-D-aspartate glutamate receptor subunits on respiratory motor and premotor neurons in the rat. J Comp Neurol 389: 94-116.
52. Tomiyama M, Kimura T, Maeda T, Tanaka H, Furusawa K, et al. (2001) Expression of metabotropic glutamate receptor mRNAs in the human spinal cord: implications for selective vulnerability of spinal motor neurons in amyotrophic lateral sclerosis.J Neurol Sci 189: 65-69.
53. Nakayama K, Nishinmaru H, Kudo N (2002) Basis of changes in left-right coordination of rhythmic motor activity during development in the rat spinal cord. J Neurosci 22: 10388-10398.
54. Yamuy J, Fung SJ, Xi M, Chase MH (2004) Hypocretinergic control of spinal cord motoneurons. J Neurosci 24: 5336-5345.
55. Schulz S, Schmidt H, Handel M, Schreff M, Hollt V (1998) Differential distribution of alteratively spliced somatostatin receptor 2 isoforms (sst2A and sst2B) in rat spinal coral. Neurosci Lett 257: 37-40.
56. Tsou K, Brown S, Sanudo-Pena MC, Mackie K, Walker JM (1998) Immunohistochemical distribution of cannabinoid CB1 receptors in the rat central nervous system. Neuroscience 83:393-411.
57. Deuchars SA, Brooke RE, Frater B, Deuchars J (2001) Properties of interneurones in the intermediolateral cell column of the rat spinal coral: role of the potassium channel subunit Kv3.1. Neuroscience 106: 433-446.
58. Edwards L, Nashmi R, Jones O, Backx P, Ackerley C, et al. (2002) Upregulation of Kv 1.4 protein and gene expression after chronic spinal cord injury. J Comp Neurol 443: 154-167.
59. Watts AG, Sanchez-Watts G, Emanuel JR, Levenson R (1991) Cell-specific expression of mRNAs encoding Na+,K(+)-ATPase alpha- and beta-subunit isoforms within the rat central nervous system. Proc Natl Acad Sci U S A 88: 7425-7429.
60. Crowder KM, Gunther JM, Jones TA, Hale BD, Zhang HZ, et al. (1999) Abnormal neurotransmission in mice lacking synaptic vesicle protein 2A (SV2A). Proc Natl Acad Sci U S A 96: 15268-15273.
61. Missler M, Zhang W, Rohlmann A, Kattenstroth G, Hammer RE, et al. (2003) Alpha-neurexins couple Ca2+ channels to synaptic reside exocytosis. Nature 423: 939-948.
62. O'Brien R, Xu D, Mi R, Tang X, Hopf C, et al. (2002) Synaptically targeted narp plays an essential role in the aggregation of AMPA receptors at excitatory synapses in cultured spinal neurons. J Neorosci 22: 4487-4498.
63. Maderdrut JL, Merchenthaler I, Sundberg DK, Okado N, Oppenheim RW (1986) Distribution and development of proenkephalin-like immunoreactivity in the lumbar spinal cord of the chicken. Brain Res 377: 29-40.
64. Przewlocki R, Przewlocka B (2001) Opioids in chronic pain. Eur J Pharmacol 429: 79-91.
65. Hokfelt T, Brumovsky P, Shi T, Pedrazzini T, Villar M (2007) NPY and pain as seen from the histochemical side. Peptides 28: 365-372.
66. Wijnholds J, Chowdhury K, Wehr R, Gruss P (1995) Segment-specific expression of the neuronatin gene during early hindbrain development. Dev Biol 171: 73-84.
67. Struyk AF, Canoll PD, Wolfgang MJ, Rosen CL, D'Eustachio P, et al. (1995) Cloning of neurotrimin defines a new subfamily of differentially expressed neural cell adhesion molecules. J Neurosci 15:2141-2156.
68. Johanson RA, Sarau HM, Foley JL, Slemmon JR (2000) Calmodulin-binding peptide PEP-19 modulates activation of calmodulin kinase II In situ. J Neurosci 20: 2860-2866.
69. Watson WD, Facchina SL, Grimaldi M, Verma A (2003) Sarco-endoplasmic reticulum Ca2+ ATPase (SERCA) inhibitors identify a novel calcium pool in the central nervous system. J Neorochem 87: 30-43.
70. Akinori M (1998) Subspecies of protein kinase C in the rat spinal cord. Prog Neurobiol 54: 499-530.
71. Seitz A, Kragol M, Aglow E, Showe L, Heber-Katz E (2003) Apolipoprotein E expression after spinal cord injury in the mouse. J Neurosci Res 71: 417-426.
72. Li L, Kaplan J (1996) Characterization of yeast methyl sterol oxidase (ERG25) and identification of a human homologue. J Biol Chem 271: 16927-16933.
73. Uwabe K, Gahara Y, Yamada H, Miyake T, Kitamura T (1997) Identification and characterization of a novel gene (neurorep 1) expressed in nerve cells and up-regulated after axotomy. Neuroscience 80: 501-509.
74. Verge GM, Milligan ED, Maier SF, Watkins LR, Naeve OS, et al. (2004) Fractalkine (CX3CL1) and fractalkine receptor (CX3CR1) distribution in spinal cord and dorsal root ganglia under basal and neuropathic pain conditions. Eur J Neurosci 20: 1150-1160.
75. De Biase A, Knoblach SM, Di Giovanni S, Fan C, Molon A, et al. (2005) Gene expression profiling of experimental traumatic spinal cord injury as a function of distance from impact site and injury severity. Physiol Genomics 22: 368-381.
76. Di Giovanni S, Knoblach SM, Brandoli C, Aden SA, Hoffman EP, et al. (2003) Gene profiling in spinal cord injury shows role of cell cycle in neuronal death. Ann Neurol 53: 454-468.
77. Alizadeh AA, Ross DT, Perou CM, van de Rijn M (2001) Towards a novel classification of human malignancies based of gene expression pattern. J Pathol 195: 41-52.
78. Fernandez-Medarde A, Porteros A, de las Rivas J, Nunez A, Fuster JJ, et al. (2007) Laser microdissection and microarray analysis of the hippocampus of Ras-GRF1 knockout mice reveals gene expression changes affecting signal transduction pathways related to memory and learning. Neuroscience 146: 272-285.
79. Workman C, Jensen LJ, Jarmer H, Berka R, Gautier L, et al. (2002) A new non-linear normalization method for reducing variability in DNA microarray experiments. Genome Biol 3: research0048.
80. Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, et al. (2003) Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4: 249-264.
81. Minson JB, Llewellyn-Smith IJ, Arnolda LF (2001) Neuropeptide Y mRNA expression in interneuron in rat spinal cord Auton Neurosci 93: 14-20.
82. Marti E, Biffo S, Fasolo A (1992) Neoropeptide Y m-RNA and peptide are transiently expressed in the developing rat spinal cord. Neuroreport 3: 401-404.
83. Gutman GA, Chandy KG, Grissmer S, Lazdunski M, McKinnon D, et al. (2005) International Union of Pharmacology LIII. Nomenclature and molecular relationships of voltage-gated potassium channels. Pharmacol Rev 57: 473-508.
84. Pongs O (1999) Voltage-gated potassium channels: from hyperexcitability to excitement FEBS Lett 452: 31-35.
85. Hernandez-Pineda R, Chow A, Amarillo Y, Moreno H, Saganich M, et al. (1999) Kv3.1-Kv3.2 channels underlie a high-voltage-activating component of the delayed rectifier K+ current in projecting neurons from the globus pallidus. J Neurophysiol 82: 1512-1528.
86. Taccola G, Marchetti C, Nistri A (2004) Modulation of rhythmic patterns and cumulative depolarization by group I metabotropic glutamate receptors in the neonatal rat spinal cord in vitro. Eur J Neurosci 19: 533-541.
87. Cazalets JR, Bertrand S, Sqalli-Houssaini Y, Clarac F (1990) GABAergic control of spinal locomotor networks in the neonatal rat. Ann N Y Acad Sci 860: 160-180.
88. Kettunen P, Kyriakatos A, Hallen K, El Manira A (2005) Neuromodulation via conditional release of endocannabinoids in the spinal locomotor network. Neuron 45: 95-104.
89. Kiehn O, Quinlan KA, Restrepo CE, Lundfald L, Borgius L, et al. (2008) Excitatory components of the mammalian locomotor CPG. Brain Res Rev 57: 56-63.
90. Date Y, Mondal MS, Matsukura S, Nakazato M (2000) Distribution of orexin-A and orexin-B (hypocretins) in the rat spinal cord. Neurosci Lett 288: 87-90.
91. Pan HL, Wu ZZ, Zhou HY, Chen SR, Zhang HM, et al. (2008) Modulation of pain transmission by G-protein-coupled receptors. Pharmacol Ther 117: 141-161.
92. Yin KJ (1995) Distribution of somatostatin mRNA containing neurons in the primary pain relaying nuclei of the rat. Anat Rec 241: 579-584.
93. Segond von Banchet G, Schindler M, Hervieu GJ, Beckmann B, Emson PC, et al. (1999) Distribution of somatostatin receptor subtypes in rat lumbar spinal cord examined with gold-labelled somatostatin and anti-receptor antibodies. Brain Res 816: 254-257.
94. Hounsgaard J, Hultborn H, Jespersen B, Kiehn O (1988) Bistability of alpha-motoneurones in the decerebrate cat and in the acute spinal cat after intravenous 5-hydroxytryptophan. J Physiol 405: 345-367.
95. Kiehn O, Hultborn H, Conway BA (1992) Spinal locomotor activity in acutely spinalized cats induced by intrathecal application of noradrenaline. Neurosci Lett 143: 243-246.
96. Crone C, Hultborn H, Kiehn O, Mazieres L, Wigstrom H (1988) Maintained changes in motoneuronal excitability by short-lasting, synaptic inputs in the decerebrate cat. J Physiol 405: 321-343.
97. Byrnes KR, Garay J, Di Giovanni S, De Biase A, Knoblach SM, et al. (2006) Expression of two temporally distinct microglia-related gene clusters after spinal cord injury. Glia 53: 420-433.
98. Di Giovanni S, Faden AI, Yakovlev A, Duke-Cohan JS, Finn T, et al. (2005) Neuronal plasticity after spinal cord injury: identification of a gene cluster driving neurite outgrowth. Faseb J 19: 153-154.
99. Baugh LR, Hill AA, Brown EL, Hunter CP (2001) Quantitative analysis of mRNA amplification by \em in vitro transcription. Nucleic Acid Research 29.
100. Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods 25: 402-408.
101. Dai M, Wang P, Boyd AD, Kostov G, Athey B, et al. (2005) Evolving gene/ transcript definitions significantly after the interpretation of GeneChip data. Nucleic Acids Res 33:e175.
102. Gautier L, Moller M, Friis-Hansen L, Knudsen S (2004) Alternative mapping of probes to genes for Affymetrix chips. BMC Bioinformatics 5: 111.
103. Hubbard TJ, Aken BL, Beal K, Ballester B, Cacamo M, et al. (2007) Ensembl 2007. Nucleic Adds Res 35: D610-617.
104. Affymetrix (2002) Statistical algorithms description document Santa Clara: Affymetrix.
105. Naef F, Lim DL, Patil N, Magnasco M (2002) DNA hybridization to mismatched templares: A chip study. Physical Review E 65.
106. Gautier L, Cope L, Bolstad BM, Irizarry RA (2004) affy-analysis of Affymetrix GeneChip data at the probe level. Bioinformatics 20: 307-315.
107. Li C, Wong WH (2001) Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biology 2.
108. Irizarry RA, Bolstad BM, Collin F, Cope LM, Hobbs B, et al, (2003) Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Res 31: e15.
109. Wettenhall JM, Smyth GK (2004) limmaGUI: a graphical user interface for linear modeling of microarray data. Bioinformatics 20: 3705-3706.
110. Pawitan Y, Michiels, S, Koscielny S, Gusnanto A, Ploner A (2005) False discovery rate, sensitivity and sample size for microarray studies. Bioinformatics 21: 3017-3024.
111. Efron B, Tibshirani R (2002) Empirical bayes methods and false discovery rates for microarrays. Genet Epidemiol 23: 70-86.
112. Allison DB, Gadbury GL, Heo M, Fernández JR, Lee C-l, et al. (2002) A mixture model approach for the analysis of microarray gene expression data. Computational Statistics & Data Analysis 39: 1-20.