limma: Linear Models for Microarray Data

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Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments

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Variance stabilization applied to microarray data calibration and to the quantification of differential expression

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Identifying differentially expressed genes using false discovery rate controlling procedures

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Use of within-array replicate spots for assessing differential expression in microarray experiments

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Statistical Issues in cDNA Microarray Data Analysis

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Parameter estimation for the calibration and variance stabilization of microarray data

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Design and analysis of comparative microarray experiments

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Pseudomonas fluorescens Induces Strain-Dependent and Strain-Independent Host Plant Responses in Defense Networks, Primary Metabolism, Photosynthesis, and Fitness

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The effect of translocation-induced nuclear reorganization on gene expressionPreprint

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The ROS/SUMO Axis Contributes to the Response of Acute Myeloid Leukemia Cells to Chemotherapeutic Drugs

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Genome-wide DNA methylation analysis of patients with imprinting disorders identifies differentially methylated regions associated with novel candidate imprinted genes

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Artificial intelligence applied to ‘omics data in liver disease: towards a personalised approach for diagnosis, prognosis and treatment

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Common pathogenetic mechanism involving human chromosome 18 in familial and sporadic ileal carcinoid tumors

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Methylation-dependent SOX9 expression mediates invasion in human melanoma cells and is a negative prognostic factor in advanced melanoma

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Analytical tools and current challenges in the modern era of neuroepigenomics

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Deciphering the Molecular Basis of Wine Yeast Fermentation Traits Using a Combined Genetic and Genomic Approach

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Glucocorticoids Modulate the mTOR Pathway in the Hippocampus: Differential Effects Depending on Stress History

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Mutations in TMEM76 Cause Mucopolysaccharidosis IIIC (Sanfilippo C Syndrome)

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GSK-3α Promotes Oncogenic KRAS Function in Pancreatic Cancer via TAK1–TAB Stabilization and Regulation of Noncanonical NF-κB

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Inhibiting DNA methylation activates cancer testis antigens and expression of the antigen processing and presentation machinery in colon and ovarian cancer cells

Siebenkäs, C., Chiappinelli, K. B., Guzzetta, A. A., Sharma, A. R., Jeschke, J., Vatapalli, R. J., Baylin, S. B., & Ahuja, N. (2017) · PLoS ONE · doi:10.1371/journal.pone.0179501 · Cited by 100

Machine Learning Predicts the Yeast Metabolome from the Quantitative Proteome of Kinase Knockouts

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Characterization of barley (Hordeum vulgare L.) NAC transcription factors suggests conserved functions compared to both monocots and dicots

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Alterations in miRNA Levels in the Dentate Gyrus in Epileptic Rats

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Smchd1 regulates a subset of autosomal genes subject to monoallelic expression in addition to being critical for X inactivation

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The Arabidopsis Elongator Complex Subunit2 Epigenetically Regulates Plant Immune Responses

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Subtypes of familial breast tumours revealed by expression and copy number profiling

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Compensatory Evolution of Gene Regulation in Response to Stress by Escherichia coli Lacking RpoS

Stoebel, D. M., Hokamp, K., Last, M. S., & Dorman, C. J. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000671 · Cited by 99

Keeping Control: The Role of Senescence and Development in Plant Pathogenesis and Defense

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Gene set selection via LASSO penalized regression (SLPR)

Frost, H. R., & Amos, C. I. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx291 · Cited by 102

Intravenous Infusion of Human Adipose Mesenchymal Stem Cells Modifies the Host Response to Lipopolysaccharide in Humans: A Randomized, Single-Blind, Parallel Group, Placebo Controlled Trial

Perlee, D., van Vught, L. A., Scicluna, B. P., Maag, A., Lutter, R., Kemper, E. M., Veer, C. V. ′., Punchard, M. A., González, J., Richard, M. P., et al. (2018) · Stem Cells · doi:10.1002/stem.2891 · Cited by 99

Distinct DNA methylation profiles in subtypes of orofacial cleft

Sharp, G. C., Ho, K. M., Davies, A., Stergiakouli, E., Humphries, K., McArdle, W. L., Sandy, J. R., Smith, G. D., Lewis, S. J., & Relton, C. L. (2017) · Clinical Epigenetics · doi:10.1186/s13148-017-0362-2 · Cited by 102

JMJD6 is a tumorigenic factor and therapeutic target in neuroblastoma

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A statistical framework for differential pseudotime analysis with multiple single-cell RNA-seq samples

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Cadmium triggers an integrated reprogramming of the metabolism of Synechocystis PCC6803, under the control of the Slr1738 regulator

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Coordinate Regulation of Lipid Metabolism by Novel Nuclear Receptor Partnerships

Pathare, P., Lin, A., Bornfeldt, K., Taubert, S., & Gilst, M. R. V. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002645 · Cited by 102

Identification of Functional Networks of Estrogen- and c-Myc-Responsive Genes and Their Relationship to Response to Tamoxifen Therapy in Breast Cancer

Musgrove, E. A., Sergio, C. M., Loi, S., Inman, C. K., Anderson, L. R., Alles, M. C., Pinese, M., Caldon, C. E., Schütte, J., Gardiner‐Garden, M., et al. (2008) · PLoS ONE · doi:10.1371/journal.pone.0002987 · Cited by 99

Comparison of Human and Rat Uterine Leiomyomata: Identification of a Dysregulated Mammalian Target of Rapamycin Pathway

Crabtree, J. S., Jelinsky, S. A., Harris, H. A., Choe, S. E., Cotreau, M. M., Kimberland, M. L., Wilson, E., Saraf, K. A., Liu, W., McCampbell, A. S., et al. (2009) · Cancer Research · doi:10.1158/0008-5472.can-08-4471 · Cited by 99

Chromosome instability induced by Mps1 and p53 mutation generates aggressive lymphomas exhibiting aneuploidy-induced stress

Foijer, F., Xie, S. Z.-J., Simon, J. E., Bakker, P. L., Conte, N., Davis, S. H., Kregel, E., Jonkers, J., Bradley, A., & Sorger, P. K. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1400892111 · Cited by 99

Transforming Growth Factor β Inhibits Bone Morphogenetic Protein-Induced Transcription through Novel Phosphorylated Smad1/5-Smad3 Complexes

Gronroos, E. C., Kingston, I. J., Ramachandran, A., Randall, R. A., Vizán, P., & Hill, C. S. (2012) · Molecular and Cellular Biology · doi:10.1128/mcb.00231-12 · Cited by 99

MERTK as negative regulator of human T cell activation

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Chromosomal rearrangement interferes with meiotic X chromosome inactivationPreprint

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Hyperactivation of anandamide synthesis and regulation of cell-cycle progression via cannabinoid type 1 (CB 1 ) receptors in the regenerating liver

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Central Role of Manganese in Regulation of Stress Responses, Physiology, and Metabolism in Streptococcus pneumoniae

Ogunniyi, A. D., Mahdi, L. K., Jennings, M. P., McEwan, A. G., McDevitt, C. A., der Hoek, M. B. V., Bagley, C. J., Hoffmann, P., Gould, K. A., & Paton, J. C. (2010) · Journal of Bacteriology · doi:10.1128/jb.00064-10 · Cited by 98

Multitissue Transcriptomics Delineates the Diversity of Airway T Cell Functions in Asthma

Singhania, A., Wallington, J. C., Smith, C. G., Horowitz, D. M., Staples, K. J., Howarth, P. H., Gadola, S. D., Djukanović, R., Woelk, C. H., & Hinks, T. (2017) · American Journal of Respiratory Cell and Molecular Biology · doi:10.1165/rcmb.2017-0162oc · Cited by 100

Altered serotonin (5-HT) 1D and 2A receptor expression may contribute to defective insulin and glucagon secretion in human type 2 diabetes

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The NHR-8 Nuclear Receptor Regulates Cholesterol and Bile Acid Homeostasis in C. elegans

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Obesity Is Mediated by Differential Aryl Hydrocarbon Receptor Signaling in Mice Fed a Western Diet

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Expression patterns of microRNAs in the chorioamniotic membranes: a role for microRNAs in human pregnancy and parturition

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c-MYC coordinately regulates ribosomal gene chromatin remodeling and Pol I availability during granulocyte differentiation

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Inhalation of rod-like carbon nanotubes causes unconventional allergic airway inflammation

Rydman, E., Ilves, M., Koivisto, A. J., Kinaret, P., Fortino, V., Savinko, T., Lehto, M., Pulkkinen, V., Vippola, M., Hämeri, K. J., et al. (2014) · Particle and Fibre Toxicology · doi:10.1186/s12989-014-0048-2 · Cited by 99

DUX4-induced constitutive DNA damage and oxidative stress contribute to aberrant differentiation of myoblasts from FSHD patients

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Patient-specific data fusion defines prognostic cancer subtypes

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The role of breast-feeding in infant immune system: a systems perspective on the intestinal microbiome

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Discovery of Core Biotic Stress Responsive Genes in Arabidopsis by Weighted Gene Co-Expression Network Analysis

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Acute depletion of Tet1-dependent 5-hydroxymethylcytosine levels impairs LIF/Stat3 signaling and results in loss of embryonic stem cell identity

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DEVELOPMENTAL DECOUPLING OF ALTERNATIVE PHENOTYPES: INSIGHTS FROM THE TRANSCRIPTOMES OF HORN-POLYPHENIC BEETLES

Snell‐Rood, E. C., Cash, A., Han, M., Kijimoto, T., Andrews, J., & Moczek, A. P. (2010) · Evolution · doi:10.1111/j.1558-5646.2010.01106.x · Cited by 97

The transcription factors TFE3 and TFEB amplify p53 dependent transcriptional programs in response to DNA damage

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Large-scale microbiome data integration enables robust biomarker identification

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Increased endoplasmic reticulum stress in decidual tissue from pregnancies complicated by fetal growth restriction with and without pre-eclampsia

Lian, I. A., Løset, M., Mundal, S. B., Fenstad, M. H., Johnson, M. P., Eide, I. P., Bjørge, L., Freed, K. A., Moses, E. K., & Austgulen, R. (2011) · Placenta · doi:10.1016/j.placenta.2011.08.005 · Cited by 97

CandidatusLiberibacter americanus induces significant reprogramming of the transcriptome of the susceptible citrus genotype

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Developmental and evolutionary basis for drought tolerance of the Anopheles gambiae embryo

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Overexpression of cathepsin f, matrix metalloproteinases 11 and 12 in cervical cancer

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Identification of Plet-1 as a specific marker of early thymic epithelial progenitor cells

Depreter, M., Blair, N. F., Gaskell, T. L., Nowell, C. S., Davern, K. M., Pagliocca, A., Stenhouse, F. H., Farley, A., Fraser, A., Vrána, J., et al. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0711170105 · Cited by 101

Molecular events of apical bud formation in white spruce,Picea glauca

Kayal, W. E., Allen, C. C. G., Ju, C. J. ‐., Adams, E., King-Jones, S., Zaharia, L. I., Abrams, S. R., & Cooke, J. E. K. (2010) · Plant Cell & Environment · doi:10.1111/j.1365-3040.2010.02257.x · Cited by 98

Root type and soil phosphate determine the taxonomic landscape of colonizing fungi and the transcriptome of field‐grown maize roots

Yu, P., Wang, C., Baldauf, J. A., Tai, H., Gutjahr, C., Hochholdinger, F., & Li, C. (2017) · New Phytologist · doi:10.1111/nph.14893 · Cited by 97

Genomic expression dominance in the natural allopolyploid Coffea arabica is massively affected by growth temperature

Bardil, A., de Almeida, J. D., Combes, M., Lashermes, P., & Bertrand, B. (2011) · New Phytologist · doi:10.1111/j.1469-8137.2011.03833.x · Cited by 96

Correlation of the lung microbiota with metabolic profiles in bronchoalveolar lavage fluid in HIV infection

Cribbs, S. K., Uppal, K., Li, S., Jones, D. P., Huang, L., Tipton, L., Fitch, A. C., Greenblatt, R. M., Kingsley, L., Guidot, D. M., et al. (2016) · Microbiome · doi:10.1186/s40168-016-0147-4 · Cited by 96

Clinical and subclinical endometritis induced alterations in bovine endometrial transcriptome and miRNome profile

Salilew‐Wondim, D., Ibrahim, S., Gebremedhn, S., Tesfaye, D., Heppelmann, M., Bollwein, H., Pfarrer, C. D., Tholen, E., Neuhoff, C., Schellander, K., et al. (2016) · BMC Genomics · doi:10.1186/s12864-016-2513-9 · Cited by 99

Control of Oriented Tissue Growth through Repression of Organ Boundary Genes Promotes Stem Morphogenesis

Bencivenga, S., Serrano-Mislata, A., Bush, M., Fox, S., & Sablowski, R. W. M. (2016) · Developmental Cell · doi:10.1016/j.devcel.2016.08.013 · Cited by 100

Inducible and reversible phenotypes in a novel mouse model of Friedreich’s Ataxia

Chandran, V., Gao, K., Swarup, V., Versano, R., Dong, H., Jordan, M. C., & Geschwind, D. H. (2017) · eLife · doi:10.7554/elife.30054 · Cited by 103

Structural and kinetic analysis of the COP9-Signalosome activation and the cullin-RING ubiquitin ligase deneddylation cycle

Mosadeghi, R., Reichermeier, K. M., Winkler, M., Schreiber, A., Reitsma, J. M., Zhang, Y., Stengel, F., Cao, J., Kim, M., Sweredoski, M. J., et al. (2016) · eLife · doi:10.7554/elife.12102 · Cited by 95

Parasitization by the wasp Eretmocerus mundus induces transcription of genes related to immune response and symbiotic bacteria proliferation in the whitefly Bemisia tabaci

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Listeria monocytogenes σ B Has a Small Core Regulon and a Conserved Role in Virulence but Makes Differential Contributions to Stress Tolerance across a Diverse Collection of Strains

Oliver, H. F., Orsi, R. H., Wiedmann, M., & Boor, K. J. (2010) · Applied and Environmental Microbiology · doi:10.1128/aem.00031-10 · Cited by 95

Is famine exposure during developmental life in rural Bangladesh associated with a metabolic and epigenetic signature in young adulthood? A historical cohort study

Finer, S., Iqbal, M. S., Lowe, R., Ogunkolade, B.-W., Pervin, S., Mathews, C. S., Smart, M., Alam, D. S., & Hitman, G. A. (2016) · BMJ Open · doi:10.1136/bmjopen-2016-011768 · Cited by 98

Social Status Predicts How Sex Steroid Receptors Regulate Complex Behavior across Levels of Biological Organization

O’Connell, L. A., & Hofmann, H. A. (2011) · Endocrinology · doi:10.1210/en.2011-1663 · Cited by 99

CMA – a comprehensive Bioconductor package for supervised classification with high dimensional data

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Heteronemin, a spongean sesterterpene, inhibits TNFα-induced NF-κB activation through proteasome inhibition and induces apoptotic cell death

Schumacher, M. M., Cerella, C., Eifes, S., Chateauvieux, S., Morceau, F., Jaspars, M., Dicato, M. A., & Diederich, M. F. (2009) · Biochemical Pharmacology · doi:10.1016/j.bcp.2009.09.027 · Cited by 97

A Comparative Analysis of Industrial Escherichia coli K–12 and B Strains in High-Glucose Batch Cultivations on Process-, Transcriptome- and Proteome Level

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Surviving the cold: molecular analyses of insect cryoprotective dehydration in the Arctic springtail Megaphorura arctica (Tullberg)

Clark, M. S., Thorne, M. A. S., Purać, J. S., Burns, G., Hillyard, G., Popović, Ž. D., Grubor‐Lajšić, G., & WORLAND, M. R. (2009) · BMC Genomics · doi:10.1186/1471-2164-10-328 · Cited by 97

Evolutionary development of the plant spore and pollen wall

Wallace, S., Fleming, A. J., Wellman, C. H., & Beerling, D. J. (2011) · AoB Plants · doi:10.1093/aobpla/plr027 · Cited by 95

Transcriptome Analysis Reveals Differential Splicing Events in IPF Lung Tissue

Nance, T., Smith, K. S., Anaya, V., Richardson, R., Ho, L. A., Pala, M., Mostafavi, S., Battle, A. J., Feghali‐Bostwick, C. A., Rosen, G., et al. (2014) · PLoS ONE · doi:10.1371/journal.pone.0092111 · Cited by 95

Interferon-γ Inhibits Ebola Virus Infection

Rhein, B. A., Powers, L. S., Rogers, K. J., Anantpadma, M., Singh, B. K., Sakurai, Y., Bair, T., Miller-Hunt, C. L., Sinn, P. L., Davey, R. A., et al. (2015) · PLoS Pathogens · doi:10.1371/journal.ppat.1005263 · Cited by 99

Conserved senescence associated genes and pathways in primary human fibroblasts detected by RNA-seq

Marthandan, S., Baumgart, M., Priebe, S., Groth, M., Schaer, J., Kaether, C., Guthke, R., Cellerino, A., Platzer, M., Diekmann, S., et al. (2016) · PLOS ONE · doi:10.1371/journal.pone.0154531 · Cited by 91

Effective Adjunctive Therapy by an Innate Defense Regulatory Peptide in a Preclinical Model of Severe Malaria

Achtman, A. H., Pilat, S., Law, C. W., Lynn, D. J., Janot, L., Mayer, M. L., Ma, S., Kindrachuk, J., Finlay, B. B., Brinkman, F. S. L., et al. (2012) · Science Translational Medicine · doi:10.1126/scitranslmed.3003515 · Cited by 94

Aflatoxin B1 induces persistent epigenomic effects in primary human hepatocytes associated with hepatocellular carcinoma

Rieswijk, L., Claessen, S. M. H., Bekers, O., van Herwijnen, M. H. M., Theunissen, D. H. J., Jennen, D. G. J., de Kok, T. M. C. M., Kleinjans, J. C. S., & Breda, S. G. J. V. (2016) · Toxicology · doi:10.1016/j.tox.2016.05.002 · Cited by 94

Hippocampal Subregions Express Distinct Dendritic Transcriptomes that Reveal Differences in Mitochondrial Function in CA2

Farris, S., Ward, J. M., Carstens, K. E., Samadi, M., Wang, Y., & Dudek, S. M. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.08.093 · Cited by 94

Only skin deep: shared genetic response to the deadly chytrid fungus in susceptible frog species

Rosenblum, E. B., Poorten, T. J., Settles, M. L., & Murdoch, G. K. (2012) · Molecular Ecology · doi:10.1111/j.1365-294x.2012.05481.x · Cited by 94

Deciphering Thylakoid Sub-compartments using a Mass Spectrometry-based Approach

Tomizioli, M., Lazar, C., Brugière, S., Bürger, T., Salvi, D., Gatto, L., Moyet, L., Breckels, L. M., Hesse, A.-M., Lilley, K. S., et al. (2014) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m114.040923 · Cited by 94

Down-regulation of a single auxin efflux transport protein in tomato induces precocious fruit development

Mounet, F., Moing, A., Kowalczyk, M., Rohrmann, J., Petit, J., Garcia, V., Maucourt, M. M., Yano, K., Deborde, C., Aoki, K., et al. (2012) · Journal of Experimental Botany · doi:10.1093/jxb/ers167 · Cited by 97

Using transcriptomics to guide lead optimization in drug discovery projects: Lessons learned from the QSTAR project

Verbist, B. M. P., Klambauer, G., Vervoort, L., Talloen, W., Shkedy, Z., Thas, O., Bender, A., Göhlmann, H. W. H., & Hochreiter, S. (2015) · Drug Discovery Today · doi:10.1016/j.drudis.2014.12.014 · Cited by 96

Identification of the Virulence Landscape Essential for Entamoeba histolytica Invasion of the Human Colon

Thibeaux, R., Weber, C., Hon, C.-C., Dillies, M., Avé, P., Coppée, J., Labruyère, E., & Guillén, N. (2013) · PLoS Pathogens · doi:10.1371/journal.ppat.1003824 · Cited by 94

Analysis of PHOTOPERIOD SENSITIVITY5 Sheds Light on the Role of Phytochromes in Photoperiodic Flowering in Rice

Andrés, F., Galbraith, D. W., Talón, M., & Domingo, C. (2009) · PLANT PHYSIOLOGY · doi:10.1104/pp.109.139097 · Cited by 94

Low Concentrations of Bile Salts Induce Stress Responses and Reduce Motility inBacillus cereusATCC 14570

Kristoffersen, S. M., Ravnum, S., Tourasse, N. J., Økstad, O. A., Kolstø, A., & Davies, W. A. (2007) · Journal of Bacteriology · doi:10.1128/jb.00239-07 · Cited by 94

Ependymoma gene expression profiles associated with histological subtype, proliferation, and patient survival

Zangen, I. L.-V., Kneitz, S., Monoranu, C., Rutkowski, S., Hinkes, B. G., Vince, G. H., Huang, B., & Roggendorf, W. (2007) · Acta Neuropathologica · doi:10.1007/s00401-006-0190-5 · Cited by 94

Multiple Transcriptome Data Analysis Reveals Biologically Relevant Atopic Dermatitis Signature Genes and Pathways

Ghosh, D., Ding, L., Sivaprasad, U., Geh, E., Biagini Myers, J., Bernstein, J. A., Khurana Hershey, G. K., & Mersha, T. B. (2015) · PLOS ONE · doi:10.1371/journal.pone.0144316 · Cited by 94

Alteration in basal and depolarization induced transcriptional network in iPSC derived neurons from Timothy syndrome

Tian, Y., Voineagu, I., Paşca, S. P., Won, H., Chandran, V., Horvath, S., Dolmetsch, R. E., & Geschwind, D. H. (2014) · Genome Medicine · doi:10.1186/s13073-014-0075-5 · Cited by 93

RNA‐seq Data: Challenges in and Recommendations for Experimental Design and Analysis

Williams, A. G., Thomas, S., Wyman, S. K., & Holloway, A. K. (2014) · Current Protocols in Human Genetics · doi:10.1002/0471142905.hg1113s83 · Cited by 93

The metabolomics of asthma control: a promising link between genetics and disease

McGeachie, M. J., Dahlin, A., Qiu, W., Croteau‐Chonka, D. C., Savage, J. R. K., Wu, A. C., Wan, E. S., Sordillo, J. E., Al-Garawi, A. A., Martínez, F. D., et al. (2015) · Immunity Inflammation and Disease · doi:10.1002/iid3.61 · Cited by 93

Pivotal role of protein tyrosine phosphatase 1B (PTP1B) in the macrophage response to pro-inflammatory and anti-inflammatory challenge

Través, P. G., Pardo, V., Pimentel-Santillana, M., González‐Rodríguez, Á., Mojena, M., Rico, D., Montenegro, Y., Calés, C., Martín‐Sanz, P., Valverde, Á. M., et al. (2014) · Cell Death and Disease · doi:10.1038/cddis.2014.90 · Cited by 94

Regulation of multiple aquaporin genes in Arabidopsis by a pair of recently duplicated DREB transcription factors

Rae, L., Lao, N. T., & Kavanagh, T. A. (2011) · Planta · doi:10.1007/s00425-011-1414-z · Cited by 98

DNA methylation patterns in newborns exposed to tobacco in utero

Ivorra, C., Fraga, M. F., Bayón, G. F., Fernández, A. F., García-Vicent, C., Chaves, F. J., Redón, J., & Lurbe, E. (2015) · Journal of Translational Medicine · doi:10.1186/s12967-015-0384-5 · Cited by 93

Gene Networks in Plant Biology: Approaches in Reconstruction and Analysis

Li, Y., Pearl, S. A., & Jackson, S. A. (2015) · Trends in Plant Science · doi:10.1016/j.tplants.2015.06.013 · Cited by 96

Quantitative Expression Profiling in Formalin-Fixed Paraffin-Embedded Samples by Affymetrix Microarrays

Abdueva, D. A., Wing, M. R., Schaub, B., Triche, T. J., & Davicioni, E. (2010) · Journal of Molecular Diagnostics · doi:10.2353/jmoldx.2010.090155 · Cited by 93

Transcriptional analysis of early lineage commitment in human embryonic stem cells

Laslett, A. L., Grimmond, S. M., Gardiner, B., Stamp, L. A., Lin, A., Hawes, S. M., Wormald, S., Nikolic‐Paterson, D. J., Haylock, D. N., & Pera, M. F. (2007) · BMC Developmental Biology · doi:10.1186/1471-213x-7-12 · Cited by 93

Two-stage Genome-wide Methylation Profiling in Childhood-onset Crohnʼs Disease Implicates Epigenetic Alterations at the VMP1/MIR21 and HLA Loci

Adams, A. T., Kennedy, N. A., Hansen, R., Ventham, N. T., O’Leary, K. R., Drummond, H. E., Noble, C. L., El-Omar, E. M., Russell, R. K., Wilson, D. C., et al. (2014) · Inflammatory Bowel Diseases · doi:10.1097/mib.0000000000000179 · Cited by 97

Efficient molecular subtype classification of high‐grade serous ovarian cancer

Leong, H. S., Galletta, L., Etemadmoghadam, D., George, J., Study, T. A. O. C., Köbel, M., Ramus, S. J., & Bowtell, D. D. L. (2015) · The Journal of Pathology · doi:10.1002/path.4536 · Cited by 94

Gene expression profiling of E wing sarcoma tumours reveals the prognostic importance of tumour–stromal interactions: a report from the C hildren's O ncology G roup

Volchenboum, S. L., Andrade, J., Huang, L., Barkauskas, D. A., Krailo, M., Womer, R. B., Ranft, A., Potratz, J. C., Dirksen, U., Triche, T. J., et al. (2015) · The Journal of Pathology Clinical Research · doi:10.1002/cjp2.9 · Cited by 94

Limma: linear models for microarray data. In Bioinformatics and computational biology solutions using R and Bioconductor

Smyth, G. K. (2013)

limmaGUI: A graphical user interface for linear modeling of microarray data

Wettenhall, J. M., & Smyth, G. K. (2004) · Bioinformatics · doi:10.1093/bioinformatics/bth449 · Cited by 720

Empirical array quality weights in the analysis of microarray data

Ritchie, M. E., Diyagama, D., Neilson, J., van Laar, R., Dobrovic, A., Holloway, A., & Smyth, G. K. (2006) · BMC Bioinformatics · doi:10.1186/1471-2105-7-261 · Cited by 312

Examples

Yes, L. (2010)

LLAMA: AN ONLINE MICROARRAY LINEAR ANALYSIS TOOLPreprint

Routley, B. S., & Muldoon, M. R. (2005) · MIMS EPrints (University of Southampton)