Gordon K Smyth
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Mathematics
Gordon K Smyth's Degrees
- PhD Statistics University of Melbourne
- Bachelors Mathematics University of Melbourne
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(Suggest an Edit or Addition)Gordon K Smyth's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data (2009) (27126)
- limma powers differential expression analyses for RNA-sequencing and microarray studies (2015) (20115)
- featureCounts: an efficient general purpose program for assigning sequence reads to genomic features (2013) (12280)
- Bioconductor: open software development for computational biology and bioinformatics (2004) (12224)
- Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments (2004) (11902)
- limma: Linear Models for Microarray Data (2005) (6093)
- Gene ontology analysis for RNA-seq: accounting for selection bias (2010) (4811)
- voom: precision weights unlock linear model analysis tools for RNA-seq read counts (2014) (4030)
- Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation (2012) (3783)
- Orchestrating high-throughput genomic analysis with Bioconductor (2015) (2623)
- Normalization of cDNA microarray data. (2003) (2160)
- The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote (2013) (2078)
- Generation of a functional mammary gland from a single stem cell (2006) (2047)
- ELDA: extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays. (2009) (1648)
- Use of within-array replicate spots for assessing differential expression in microarray experiments (2005) (1407)
- Aberrant luminal progenitors as the candidate target population for basal tumor development in BRCA1 mutation carriers (2009) (1339)
- The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads (2018) (1182)
- Small-sample estimation of negative binomial dispersion, with applications to SAGE data. (2007) (1029)
- Count-based differential expression analysis of RNA sequencing data using R and Bioconductor (2013) (1009)
- A comparison of background correction methods for two-colour microarrays (2007) (952)
- Moderated statistical tests for assessing differences in tag abundance (2007) (872)
- Randomized Quantile Residuals (1996) (855)
- A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control consortium (2014) (799)
- limmaGUI: A graphical user interface for linear modeling of microarray data (2004) (736)
- Control of mammary stem cell function by steroid hormone signalling (2010) (674)
- Camera: a competitive gene set test accounting for inter-gene correlation (2012) (612)
- ROBUST HYPERPARAMETER ESTIMATION PROTECTS AGAINST HYPERVARIABLE GENES AND IMPROVES POWER TO DETECT DIFFERENTIAL EXPRESSION. (2016) (585)
- From reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline (2016) (525)
- Identification and functional significance of genes regulated by structurally different histone deacetylase inhibitors. (2005) (523)
- Pro-Inflammatory CD11c+CD206+ Adipose Tissue Macrophages Are Associated With Insulin Resistance in Human Obesity (2010) (521)
- The transcription factors Blimp-1 and IRF4 jointly control the differentiation and function of effector regulatory T cells (2011) (520)
- Statistical issues in cDNA microarray data analysis. (2003) (517)
- Testing significance relative to a fold-change threshold is a TREAT (2009) (514)
- ROAST: rotation gene set tests for complex microarray experiments (2010) (467)
- Permutation P-values Should Never Be Zero: Calculating Exact P-values When Permutations Are Randomly Drawn (2010) (466)
- The transcriptional regulators IRF4, BATF and IL-33 orchestrate development and maintenance of adipose tissue–resident regulatory T cells (2015) (424)
- Transcriptome analyses of mouse and human mammary cell subpopulations reveal multiple conserved genes and pathways (2010) (401)
- The transcription factor IRF4 is essential for TCR affinity–mediated metabolic programming and clonal expansion of T cells (2013) (332)
- RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR. (2016) (328)
- Expression profiling in primates reveals a rapid evolution of human transcription factors (2006) (322)
- Generalized linear models with varying dispersion (1989) (314)
- Why weight? Modelling sample and observational level variability improves power in RNA-seq analyses (2015) (308)
- Empirical array quality weights in the analysis of microarray data (2006) (300)
- The Molecular Signature of Tissue Resident Memory CD8 T Cells Isolated from the Brain (2012) (297)
- Transcriptional profiling of mouse B cell terminal differentiation defines a signature for antibody-secreting plasma cells (2015) (295)
- It's DE-licious: A Recipe for Differential Expression Analyses of RNA-seq Experiments Using Quasi-Likelihood Methods in edgeR (2016) (292)
- Histone Deacetylase Inhibitor Panobinostat Induces Clinical Responses with Associated Alterations in Gene Expression Profiles in Cutaneous T-Cell Lymphoma (2008) (292)
- Detecting Differential Expression in RNA-sequence Data Using Quasi-likelihood with Shrunken Dispersion Estimates (2012) (277)
- Series evaluation of Tweedie exponential dispersion model densities (2005) (272)
- Platelets Kill Intraerythrocytic Malarial Parasites and Mediate Survival to Infection (2009) (271)
- Blimp-1 controls plasma cell function through regulation of immunoglobulin secretion and the unfolded protein response (2015) (258)
- csaw: a Bioconductor package for differential binding analysis of ChIP-seq data using sliding windows (2015) (256)
- Targeting BCL-2 with the BH3 mimetic ABT-199 in estrogen receptor-positive breast cancer. (2013) (255)
- Three-dimensional disorganization of the cancer genome occurs coincident with long-range genetic and epigenetic alterations (2016) (253)
- Array-based gene discovery with three unrelated subjects shows SCARB2/LIMP-2 deficiency causes myoclonus epilepsy and glomerulosclerosis. (2008) (227)
- A Modified Prony Algorithm for Exponential Function Fitting (1995) (225)
- Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips (2010) (221)
- affylmGUI: a graphical user interface for linear modeling of single channel microarray data (2006) (220)
- RANK ligand as a potential target for breast cancer prevention in BRCA1-mutation carriers (2016) (217)
- Targeting Antigen to Mouse Dendritic Cells via Clec9A Induces Potent CD4 T Cell Responses Biased toward a Follicular Helper Phenotype (2011) (199)
- Aire regulates the transfer of antigen from mTECs to dendritic cells for induction of thymic tolerance. (2011) (199)
- Complementarity and redundancy of IL-22-producing innate lymphoid cells (2015) (198)
- Fitting Tweedie's Compound Poisson Model to Insurance Claims Data: Dispersion Modelling (2002) (192)
- Deregulation of MYCN, LIN28B and LET7 in a Molecular Subtype of Aggressive High-Grade Serous Ovarian Cancers (2011) (187)
- Microarray background correction: maximum likelihood estimation for the normal–exponential convolution (2008) (175)
- Sensitization of BCL-2–expressing breast tumors to chemotherapy by the BH3 mimetic ABT-737 (2011) (175)
- diffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data (2015) (159)
- Gene Regulation in Primates Evolves under Tissue-Specific Selection Pressures (2008) (152)
- Puma and to a lesser extent Noxa are suppressors of Myc-induced lymphomagenesis (2009) (152)
- Generalized Linear Models With Examples in R (2018) (148)
- Inhibitors of histone acetyltransferases KAT6A/B induce senescence and arrest tumour growth (2018) (147)
- HDAC inhibitors induce tumor-cell-selective pro-apoptotic transcriptional responses (2013) (146)
- Id2 expression delineates differential checkpoints in the genetic program of CD8α+ and CD103+ dendritic cell lineages (2011) (144)
- Synergistic action of the MCL-1 inhibitor S63845 with current therapies in preclinical models of triple-negative and HER2-amplified breast cancer (2017) (140)
- A molecular threshold for effector CD8+ T cell differentiation controlled by transcription factors Blimp-1 and T-bet (2016) (138)
- Construction of developmental lineage relationships in the mouse mammary gland by single-cell RNA profiling (2017) (137)
- RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR (2016) (137)
- Differential Expression Analysis of Complex RNA-seq Experiments Using edgeR (2014) (134)
- Opposing roles of polycomb repressive complexes in hematopoietic stem and progenitor cells. (2010) (133)
- Identification of Pax5 Target Genes in Early B Cell Differentiation1 (2008) (131)
- Integrative analysis of RUNX1 downstream pathways and target genes (2008) (129)
- Polycomb Repressive Complex 2 (PRC2) Restricts Hematopoietic Stem Cell Activity (2008) (123)
- Aire-Deficient C57BL/6 Mice Mimicking the Common Human 13-Base Pair Deletion Mutation Present with Only a Mild Autoimmune Phenotype1 (2009) (121)
- Signal Regulatory Protein Molecules Are Differentially Expressed by CD8− Dendritic Cells1 (2006) (120)
- Global changes in the mammary epigenome are induced by hormonal cues and coordinated by Ezh2. (2013) (119)
- Assessing technical performance in differential gene expression experiments with external spike-in RNA control ratio mixtures (2014) (118)
- Evaluation of Tweedie exponential dispersion model densities by Fourier inversion (2008) (118)
- Adjusted likelihood methods for modelling dispersion in generalized linear models (1999) (117)
- goseq: Gene Ontology testing for RNA-seq datasets (2014) (115)
- Leishmaniasis host response loci (lmr1–3) modify disease severity through a Th1/Th2-independent pathway (2004) (115)
- Gata-3 Negatively Regulates the Tumor-Initiating Capacity of Mammary Luminal Progenitor Cells and Targets the Putative Tumor Suppressor Caspase-14 (2011) (110)
- Statistical modeling of sequencing errors in SAGE libraries. (2004) (109)
- Transcription Factor IRF4 Regulates Germinal Center Cell Formation through a B Cell–Intrinsic Mechanism (2014) (107)
- The neuropeptide VIP confers anticipatory mucosal immunity by regulating ILC3 activity (2019) (103)
- Fas-mediated neutrophil apoptosis is accelerated by Bid, Bak, and Bax and inhibited by Bcl-2 and Mcl-1 (2011) (102)
- Maximal killing of lymphoma cells by DNA damage-inducing therapy requires not only the p53 targets Puma and Noxa, but also Bim. (2010) (101)
- Copy Number Analysis Identifies Novel Interactions Between Genomic Loci in Ovarian Cancer (2010) (98)
- Amplicon-Dependent CCNE1 Expression Is Critical for Clonogenic Survival after Cisplatin Treatment and Is Correlated with 20q11 Gain in Ovarian Cancer (2010) (95)
- Intraclonal Plasticity in Mammary Tumors Revealed through Large-Scale Single-Cell Resolution 3D Imaging. (2019) (94)
- A Conditional Likelihood Approach to Residual Maximum Likelihood Estimation in Generalized Linear Models (1996) (93)
- Effective Adjunctive Therapy by an Innate Defense Regulatory Peptide in a Preclinical Model of Severe Malaria (2012) (92)
- The TNF Receptor Superfamily-NF-κB Axis Is Critical to Maintain Effector Regulatory T Cells in Lymphoid and Non-lymphoid Tissues. (2017) (91)
- The BTB-ZF transcription factor Zbtb20 is driven by Irf4 to promote plasma cell differentiation and longevity (2014) (90)
- De novo detection of differentially bound regions for ChIP-seq data using peaks and windows: controlling error rates correctly (2014) (90)
- Disruption of the histone acetyltransferase MYST4 leads to a Noonan syndrome-like phenotype and hyperactivated MAPK signaling in humans and mice. (2011) (90)
- Identification of quiescent and spatially restricted mammary stem cells that are hormone responsive (2017) (89)
- Gene expression profiling of esophageal cancer: Comparative analysis of Barrett's esophagus, adenocarcinoma, and squamous cell carcinoma (2007) (89)
- An aspartyl protease defines a novel pathway for export of Toxoplasma proteins into the host cell (2015) (88)
- On the consistency of Prony's method and related algorithms (1992) (85)
- Barcoding reveals complex clonal behavior in patient-derived xenografts of metastatic triple negative breast cancer (2019) (84)
- statmod: Probability Calculations for the Inverse Gaussian Distribution (2016) (84)
- A Modified Prony Algorithm for Fitting Functions Defined by Difference Equations (1991) (83)
- Nonequivalent Gene Expression and Copy Number Alterations in High-Grade Serous Ovarian Cancers with BRCA1 and BRCA2 Mutations (2013) (83)
- Pax5 loss imposes a reversible differentiation block in B-progenitor acute lymphoblastic leukemia (2013) (83)
- The molecular signature of CD8+ T cells undergoing deletional tolerance. (2009) (81)
- A Phase Ib Dose-Escalation and Expansion Study of the BCL2 Inhibitor Venetoclax Combined with Tamoxifen in ER and BCL2-Positive Metastatic Breast Cancer. (2018) (80)
- Haemopedia: An Expression Atlas of Murine Hematopoietic Cells (2016) (80)
- SIDT2 Transports Extracellular dsRNA into the Cytoplasm for Innate Immune Recognition. (2017) (79)
- RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR. (2016) (79)
- Regulation of hematopoietic stem cells by their mature progeny (2010) (76)
- Infection Programs Sustained Lymphoid Stromal Cell Responses and Shapes Lymph Node Remodeling upon Secondary Challenge. (2017) (75)
- A single‐cell RNA expression atlas of normal, preneoplastic and tumorigenic states in the human breast (2021) (74)
- TRAF2 regulates TNF and NF-κB signalling to suppress apoptosis and skin inflammation independently of Sphingosine kinase 1 (2015) (72)
- An Efficient Algorithm for REML in Heteroscedastic Regression (2002) (72)
- Effector Regulatory T Cell Differentiation and Immune Homeostasis Depend on the Transcription Factor Myb (2017) (71)
- Normalization of boutique two-color microarrays with a high proportion of differentially expressed probes (2007) (71)
- Using DNA microarrays to study gene expression in closely related species (2007) (70)
- Tissue-resident ductal macrophages survey the mammary epithelium and facilitate tissue remodelling (2020) (69)
- Partitioned algorithms for maximum likelihood and other non-linear estimation (1996) (69)
- Transcription-factor-mediated supervision of global genome architecture maintains B cell identity (2018) (67)
- Pearson's goodness of fit statistic as a score test statistic (2003) (66)
- Expression discordance of monozygotic twins at birth: Effect of intrauterine environment and a possible mechanism for fetal programming (2011) (65)
- EGF-mediated induction of Mcl-1 at the switch to lactation is essential for alveolar cell survival (2015) (64)
- The use of miRNA microarrays for the analysis of cancer samples with global miRNA decrease (2013) (61)
- Peripheral natural killer cell maturation depends on the transcription factor Aiolos (2014) (61)
- Wound healing response is a major contributor to the severity of cutaneous leishmaniasis in the ear model of infection (2007) (58)
- A non‐canonical function of Ezh2 preserves immune homeostasis (2017) (57)
- Functional transcriptome analysis of the postnatal brain of the Ts1Cje mouse model for Down syndrome reveals global disruption of interferon-related molecular networks (2014) (57)
- When random assignment fails: Some lessons from the Minneapolis Spouse Abuse Experiment (1988) (54)
- Gene Network Disruptions and Neurogenesis Defects in the Adult Ts1Cje Mouse Model of Down Syndrome (2010) (54)
- MOZ (MYST3, KAT6A) inhibits senescence via the INK4A-ARF pathway (2015) (54)
- Proteomic and Metabolomic Analyses of Mitochondrial Complex I-deficient Mouse Model Generated by Spontaneous B2 Short Interspersed Nuclear Element (SINE) Insertion into NADH Dehydrogenase (Ubiquinone) Fe-S Protein 4 (Ndufs4) Gene* (2012) (53)
- Functional and metabolic remodelling in GLUT4-deficient hearts confers hyper-responsiveness to substrate intervention. (2008) (53)
- c-Myb Regulates the T-Bet-Dependent Differentiation Program in B Cells to Coordinate Antibody Responses. (2017) (52)
- Exact and approximate REML for heteroscedastic regression (2001) (51)
- A lineage of diploid platelet-forming cells precedes polyploid megakaryocyte formation in the mouse embryo. (2014) (51)
- Optimized selection of river sampling sites (1999) (50)
- Erg is required for self-renewal of hematopoietic stem cells during stress hematopoiesis in mice. (2011) (49)
- Regulation of germinal center responses and B-cell memory by the chromatin modifier MOZ (2014) (49)
- Attenuation of TCR-induced transcription by Bach2 controls regulatory T cell differentiation and homeostasis (2020) (47)
- On Using The Log-hyperbolic Distribution To Describe The Textural Characteristics Of Eolian Sediments (1988) (45)
- expression analysis of digital gene expression data (2010) (44)
- featureCounts: an efficient general-purpose read summarization program (2013) (44)
- Loss of NF‐&kgr;B1 Causes Gastric Cancer with Aberrant Inflammation and Expression of Immune Checkpoint Regulators in a STAT‐1‐Dependent Manner (2018) (44)
- From reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline. (2016) (43)
- Transcription Factor PU.1 Promotes Conventional Dendritic Cell Identity and Function via Induction of Transcriptional Regulator DC‐SCRIPT (2019) (43)
- Linear Models for Microarray Data User's Guide (Now Including RNA-Seq Data Analysis) (2013) (43)
- Molecular networks involved in mouse cerebral corticogenesis and spatio-temporal regulation of Sox4 and Sox11 novel antisense transcripts revealed by transcriptome profiling (2009) (43)
- RUNX2 Mediates Plasmacytoid Dendritic Cell Egress from the Bone Marrow and Controls Viral Immunity. (2016) (42)
- Dual Targeting of CDK4/6 and BCL2 Pathways Augments Tumor Response in Estrogen Receptor–Positive Breast Cancer (2020) (42)
- Linear Models for Microarray and RNA-Seq Data User's Guide (2015) (42)
- MOZ regulates B-cell progenitors and, consequently, Moz haploinsufficiency dramatically retards MYC-induced lymphoma development. (2015) (41)
- Differential methylation analysis of reduced representation bisulfite sequencing experiments using edgeR. (2017) (41)
- Linear ubiquitin chain assembly complex coordinates late thymic T-cell differentiation and regulatory T-cell homeostasis (2016) (41)
- Epigenetic regulator Smchd1 functions as a tumor suppressor. (2013) (40)
- Erratum: The transcriptional regulators IRF4, BATF and IL-33 orchestrate development and maintenance of adipose tissue–resident regulatory T cells (2015) (39)
- Differential co-expression-based detection of conditional relationships in transcriptional data: comparative analysis and application to breast cancer (2019) (39)
- Fine Mapping of Leishmania major Susceptibility Locus lmr2 and Evidence of a Role for Fli1 in Disease and Wound Healing (2010) (38)
- Increased autophagy in EphrinB2-deficient osteocytes is associated with elevated secondary mineralization and brittle bone (2019) (37)
- Separate-channel analysis of two-channel microarrays: recovering inter-spot information (2013) (36)
- Employing Symmetry Constraints for Improved Frequency Estimation by Eigenanalysis Methods (2000) (35)
- Activated Notch counteracts Ikaros tumor suppression in mouse and human T-cell acute lymphoblastic leukemia (2015) (35)
- Likelihood Computations for Extended Poisson Process Models (1999) (35)
- Targeting histone acetylation dynamics and oncogenic transcription by catalytic P300/CBP inhibition. (2021) (34)
- Loss of p53 Causes Stochastic Aberrant X-Chromosome Inactivation and Female-Specific Neural Tube Defects. (2019) (34)
- Genotype to phenotype: Diet-by-mitochondrial DNA haplotype interactions drive metabolic flexibility and organismal fitness (2018) (34)
- Integration of microRNA signatures of distinct mammary epithelial cell types with their gene expression and epigenetic portraits (2015) (34)
- DNMT3L Is a Regulator of X Chromosome Compaction and Post-Meiotic Gene Transcription (2011) (33)
- Murine Oncostatin M Acts via Leukemia Inhibitory Factor Receptor to Phosphorylate Signal Transducer and Activator of Transcription 3 (STAT3) but Not STAT1, an Effect That Protects Bone Mass* (2016) (33)
- Spatiotemporal regulation of multiple overlapping sense and novel natural antisense transcripts at the Nrgn and Camk2n1 gene loci during mouse cerebral corticogenesis. (2011) (33)
- A critical epithelial survival axis regulated by MCL-1 maintains thymic function in mice. (2017) (32)
- Lung Basal Stem Cells Rapidly Repair DNA Damage Using the Error-Prone Nonhomologous End-Joining Pathway (2017) (32)
- Regression Analysis of Quantity Data with Exact Zeroes ∗ (2007) (32)
- Deaf-1 regulates epithelial cell proliferation and side-branching in the mammary gland (2008) (31)
- Water quality condition and trend in North Queensland waterways. (2005) (31)
- An update on using CRISPR/Cas9 in the one-cell stage mouse embryo for generating complex mutant alleles (2017) (31)
- Conserved IKAROS-regulated genes associated with B-progenitor acute lymphoblastic leukemia outcome (2017) (31)
- Polycomb repressive complex 2 (PRC2) suppresses Eμ-myc lymphoma. (2013) (30)
- Genome-wide functional analysis reveals central signaling regulators of lymphatic endothelial cell migration and remodeling (2017) (30)
- A modified prony algorithm for estimating sinusoidal frequencies (1994) (29)
- Differential methylation analysis of reduced representation bisulfite sequencing experiments using edgeR (2017) (29)
- A pooled shRNA screen for regulators of primary mammary stem and progenitor cells identifies roles for Asap1 and Prox1 (2015) (29)
- RNA-seq mixology: designing realistic control experiments to compare protocols and analysis methods (2016) (28)
- Acute myeloid leukemia requires Hhex to enable PRC2-mediated epigenetic repression of Cdkn2a (2016) (28)
- Early Lineage Priming by Trisomy of Erg Leads to Myeloproliferation in a Down Syndrome Model (2015) (27)
- GM3 ganglioside and phosphatidylethanolamine-containing lipids are adipose tissue markers of insulin resistance in obese women (2016) (27)
- Tweedie Family Densities: Methods of Evaluation (1997) (27)
- Robust Frequency Estimation Using Elemental Sets (2000) (26)
- An Erg-driven transcriptional program controls B cell lymphopoiesis (2020) (26)
- Estimating the proportion of microarray probes expressed in an RNA sample (2010) (26)
- PHF6 regulates hematopoietic stem and progenitor cells and its loss synergizes with expression of TLX3 to cause leukemia. (2019) (25)
- An algorithm for exponential fitting revisited (1986) (25)
- Cell-Type–Specific Transcriptional Profiles of the Dimorphic Pathogen Penicillium marneffei Reflect Distinct Reproductive, Morphological, and Environmental Demands (2013) (25)
- Illumina WG-6 BeadChip strips should be normalized separately (2009) (25)
- A systematic approach for comprehensive T-cell epitope discovery using peptide libraries (2005) (24)
- Technical Variability Is Greater than Biological Variability in a Microarray Experiment but Both Are Outweighed by Changes Induced by Stimulation (2011) (24)
- Interferon-gamma released from omental adipose tissue of insulin-resistant humans alters adipocyte phenotype and impairs response to insulin and adiponectin release (2017) (24)
- Adipose tissue macrophages in human obesity Pro-inflammatory CD 11 c + CD 206 + adipose tissue macrophages are associated with insulin resistance in human obesity (2010) (24)
- Aliskiren increases bradykinin and tissue kallikrein mRNA levels in the heart (2011) (24)
- Targeting triple-negative breast cancers with the Smac-mimetic birinapant (2020) (24)
- Accuracy of the endpoint assay for virus titration (2006) (24)
- Dissociation of disease susceptibility, inflammation and cytokine profile in lmr1/2 congenic mice infected with Leishmania major (2004) (23)
- Dysregulated IL-1&bgr;-GM-CSF Axis in Acute Rheumatic Fever That Is Limited by Hydroxychloroquine (2018) (23)
- Statistical analysis of an RNA titration series evaluates microarray precision and sensitivity on a whole-array basis (2006) (23)
- MOZ and BMI1 play opposing roles during Hox gene activation in ES cells and in body segment identity specification in vivo (2015) (23)
- Transposon mutagenesis reveals cooperation of ETS family transcription factors with signaling pathways in erythro-megakaryocytic leukemia (2013) (23)
- Mutant TRP53 exerts a target gene-selective dominant-negative effect to drive tumor development (2018) (22)
- Foxp1 Is Indispensable for Ductal Morphogenesis and Controls the Exit of Mammary Stem Cells from Quiescence. (2018) (21)
- A comparative analysis of transcribed genes in the mouse hypothalamus and neocortex reveals chromosomal clustering. (2004) (21)
- Proximal genomic localization of STAT1 binding and regulated transcriptional activity (2006) (21)
- Type 1 diabetes in pregnancy is associated with distinct changes in the composition and function of the gut microbiome (2021) (20)
- Multi-level remodelling of chromatin underlying activation of human T cells (2021) (19)
- Susceptibility to Acute Rheumatic Fever Based on Differential Expression of Genes Involved in Cytotoxicity, Chemotaxis, and Apoptosis (2013) (18)
- Detection of Gene Expression in an Individual Cell Type within a Cell Mixture Using Microarray Analysis (2009) (18)
- SAGE Analysis of Genes Differentially Expressed in Presymptomatic TgSOD1G93A Transgenic Mice Identified Cellular Processes Involved in Early Stage of ALS Pathology (2010) (18)
- Acetylation of the Cd8 Locus by KAT6A Determines Memory T Cell Diversity. (2016) (18)
- Blimp1 is limiting for transformation in a mouse plasmacytoma model. (2009) (17)
- From reads to regions: a Bioconductor workflow to detect differential binding in ChIP-seq data (2015) (17)
- A stochastic model for anthracnose development in Stylosanthes scabra (1992) (16)
- Differential Expression for RNA Sequencing (RNA-Seq) Data: Mapping, Summarization, Statistical Analysis, and Experimental Design (2012) (15)
- RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR [version 2; referees: 3 approved] (2016) (15)
- Differential Expression for RNA Sequencing (RNA-Seq) Data: Mapping, Summarization, Statistical Analysis, and Experimental Design (2012) (15)
- Intraclonal Plasticity in Mammary Tumors Revealed through Large-Scale Single-Cell Resolution 3D Imaging. (2019) (15)
- A general approach to modeling and analysis of species abundance data with extra zeros (2002) (15)
- Gene expression changes during step-wise differentiation of embryonic stem cells along the inner ear hair cell pathway (2006) (15)
- No counts, no variance: allowing for loss of degrees of freedom when assessing biological variability from RNA-seq data (2017) (14)
- Molecular dissection of the pea shoot apical meristem* (2009) (14)
- Predicting Ship Fuel Consumption: Update (1996) (14)
- Empirical Bayes in the presence of exceptional cases, with application to microarray data (2013) (14)
- Genome-wide analysis reveals no evidence of trans chromosomal regulation of mammalian immune development (2018) (14)
- A recombination hotspot leads to sequence variability within a novel gene (AK005651) and contributes to type 1 diabetes susceptibility. (2010) (14)
- Individual Channel Analysis of Two-Colour Microarrays (2005) (14)
- Coupled and separable iterations in nonlinear estimation (1985) (13)
- Pre-mitotic genome re-organisation bookends the B cell differentiation process (2021) (13)
- Calling differentially methylated regions from whole genome bisulphite sequencing with DMRcate (2021) (13)
- Distinctive pro-inflammatory gene signatures induced in articular chondrocytes by oncostatin M and IL-6 are regulated by Suppressor of Cytokine Signaling-3. (2015) (12)
- Semi-parametric extended Poisson process models for count data (2004) (12)
- The histone lysine acetyltransferase HBO1 (KAT7) regulates hematopoietic stem cell quiescence and self-renewal. (2021) (12)
- Pax 5 loss imposes a reversible differentiation block in B-progenitor acute lymphoblastic leukemia (2014) (12)
- A guide to creating design matrices for gene expression experiments (2020) (11)
- Double generalized linear models: approximate REML and diagnostics (1999) (11)
- RNA-seq analysis is easy as 1-2-3 with limma , Glimma and edgeR [ version 3 ; peer review : 3 approved ] (2021) (11)
- Suction-moisture content calibration of filter papers from different boxes (1990) (11)
- Impact of RNA-seq data analysis algorithms on gene expression estimation and downstream prediction (2020) (11)
- Canonical PRC2 function is essential for mammary gland development and affects chromatin compaction in mammary organoids (2018) (10)
- Quantitative proteomic profiling reveals novel region‐specific markers in the adult mouse brain (2014) (10)
- Aire-Deficient C 57 BL / 6 Mice Mimicking the Common Human 13-Base Pair Deletion Mutation Present with Only a Mild Autoimmune Phenotype 1 (2009) (10)
- Murine hematopoietic blast colony-forming cells and their progeny have distinctive membrane marker profiles (2009) (10)
- Mammary tumour cells remodel the bone marrow vascular microenvironment to support metastasis (2021) (10)
- Neither loss of Bik alone, nor combined loss of Bik and Noxa, accelerate murine lymphoma development or render lymphoma cells resistant to DNA damaging drugs (2012) (10)
- The concerted change in the distribution of cell cycle phases and zone composition in germinal centers is regulated by IL-21 (2021) (9)
- Single cell transcriptome atlas of mouse mammary epithelial cells across development (2021) (9)
- HBO1 (KAT7) Does Not Have an Essential Role in Cell Proliferation, DNA Replication, or Histone 4 Acetylation in Human Cells (2019) (8)
- From reads to regions: a Bioconductor workflow to detect differential binding in ChIP-seq data. (2015) (8)
- Extracellular Vesicles in Synovial Fluid from Rheumatoid Arthritis Patients Contain miRNAs with Capacity to Modulate Inflammation (2021) (8)
- Optimization and Nonlinear Equations (2005) (8)
- MOZ directs the distal-less homeobox gene expression program during craniofacial development (2019) (8)
- Type 1 conventional dendritic cell fate and function are controlled by DC-SCRIPT (2021) (8)
- Gene expression edgeR : a Bioconductor package for differential expression analysis of digital gene expression data (2009) (8)
- Myocardial Gene Expression Associated with Genetic Cardiac Hypertrophy in the Absence of Hypertension (2008) (7)
- Non-equivalent gene expression and copy number alterations in high-grade serous ovarian cancers with BRCA1 and BRCA2 mutations (2013) (7)
- The Selective Expansion and Targeted Accumulation of Bone Marrow–Derived Macrophages Drive Cardiac Vasculitis (2019) (7)
- A note on modelling cross-correlations: Hyperbolic secant regression (1994) (7)
- Polynomial Approximation (1997) (6)
- Identification and characterization of the long noncoding RNA Dreg1 as a novel regulator of Gata3 (2020) (6)
- Benchmarking long-read RNA-sequencing analysis tools using in silico mixtures (2022) (6)
- High-dimensional mass cytometry identifies T cell and B cell signatures predicting reduced risk of Plasmodium vivax malaria (2021) (6)
- Procalcitonin and Interleukin-10 May Assist in Early Prediction of Bacteraemia in Children With Cancer and Febrile Neutropenia (2021) (6)
- Identifying low-grade cellular rejection after heart transplantation in children by using gene expression profiling. (2018) (5)
- A STOCHASTIC-MODEL INCORPORATING THE EFFECT OF WEATHER CONDITIONS ON ANTHRACNOSE DEVELOPMENT IN STYLOSANTHES SCABRA (1995) (5)
- Germline heterozygous mutations in Nxf1 perturb RNA metabolism and trigger thrombocytopenia and lymphopenia in mice. (2020) (5)
- FRY: a fast approximation to ROAST gene set test with mean aggregated set statistics (2016) (5)
- Gene expression profiling reveals distinct sets of genes altered during hormonally and metabolically induced cardiac hypertrophies (2004) (5)
- Statistical solutions to modern problems : proceedings of the 20th International Workshop on Statistical Modelling, Sydney, Australia, July 10-15, 2005 (2005) (5)
- Loss of TIP60 (KAT5) abolishes H2AZ lysine 7 acetylation and causes p53, INK4A, and ARF-independent cell cycle arrest (2022) (5)
- An Improved Saddelpoint Approximation Based on the Negative Binomial Distribution for the General Birth Process (2002) (4)
- LEVERAGE ADJUSTMENTS FOR DISPERSION MODELLING IN GENERALIZED NONLINEAR MODELS (2009) (4)
- Whole transcriptome analysis for T cell receptor-affinity and IRF4-regulated clonal expansion of T cells (2014) (4)
- The acetyltransferase KAT7 is required for thymic epithelial cell expansion, expression of AIRE target genes, and thymic tolerance (2022) (4)
- Circulating Small Noncoding RNA Biomarkers of Response to Triple Disease-modifying Antirheumatic Drug Therapy in White Women With Early Rheumatoid Arthritis (2020) (4)
- Analysis of Designed Microarray Experiments (2004) (4)
- Correction: TRAF2 regulates TNF and NF-κB signalling to suppress apoptosis and skin inflammation independently of Sphingosine kinase 1 (2017) (4)
- Author Correction: Increased autophagy in EphrinB2-deficient osteocytes is associated with elevated secondary mineralization and brittle bone (2019) (4)
- Chromosomes distribute randomly to, but not within, human neutrophil nuclear lobes (2020) (3)
- Transcription-factor-mediated supervision of global genome architecture maintains B cell identity (2018) (3)
- Title Empirical Analysis of Digital Gene Expression Data in R (3)
- The histone acetyltransferase HBO1 (KAT7) promotes efficient tip cell sprouting during angiogenesis. (2021) (3)
- Chapter 9: Models for Proportions: Binomial GLMs (2018) (3)
- A Modied Prony Algorithm for Fitting Functions Dened by Dierence Equations (1991) (3)
- Predicting ship fuel consumption: Update. Technical report (1996) (3)
- A pooled shRNA screen for regulators of primary mammary stem and progenitor cells identifies roles for Asap1 and Prox1 (2015) (3)
- Exponential Family Nonlinear Models: By Bo-Cheng Wei (2000) (3)
- No kissing in the nucleus: Unbiased analysis reveals no evidence of trans chromosomal regulation of mammalian immune development (2017) (3)
- Author response: An aspartyl protease defines a novel pathway for export of Toxoplasma proteins into the host cell (2015) (3)
- qtQDA: quantile transformed quadratic discriminant analysis for high-dimensional RNA-seq data (2019) (3)
- Abstract P4-04-03: Transcriptome Analyses of Mouse and Human Mammary Cell Subpopulations Reveals Multiple Conserved Genes and Pathways (2010) (3)
- A Monotonically Convergent Newton Iteration for the Quantiles of any Unimodal Distribution, with Application to the Inverse Gaussian Distribution (2014) (2)
- voom: precision weights unlock linear model analysis tools for RNA-seq read counts (2014) (2)
- EXPONENTIAL DISPERSION MODELS AND THE GAUSS‐NEWTON ALGORITHM (1991) (2)
- R code and downstream analysis objects for the scRNA-seq atlas of normal and tumorigenic human breast tissue (2022) (2)
- Transcriptional profiling of the postnatal brain of the Ts1Cje mouse model of Down syndrome (2014) (2)
- High-Throughput and Complex Gene Expression Validation Using the Universal ProbeLibrary and the LightCycler ® 480 System (2008) (2)
- Construction of developmental lineage relationships in the mouse mammary gland by single-cell RNA profiling (2017) (2)
- Chapter 10: Models for Counts: Poisson and Negative Binomial GLMs (2018) (2)
- Targeting triple-negative breast cancers with the Smac-mimetic birinapant (2020) (2)
- Blood transcriptomics identifies immune signatures indicative of infectious complications in childhood cancer patients with febrile neutropenia (2022) (2)
- Genome reconfiguration prior to mitosis shapes the generation of adaptive immunity (2019) (2)
- Chapter 11: Positive Continuous Data: Gamma and Inverse Gaussian GLMs (2018) (2)
- Chapter 4: Beyond Linear Regression: The Method of Maximum Likelihood (2018) (2)
- Chapter 8: Generalized Linear Models: Diagnostics (2018) (2)
- Suv39h-catalysed H3K9me3 is critical for euchromatic genome organisation and the maintenance of gene transcription (2020) (2)
- Molecular profiling reveals features of clinical immunity and immunosuppression in asymptomatic P. falciparum malaria (2022) (2)
- The statmod Package (2007) (2)
- Abstract S5-6: Steroid Hormone Regulation of Mammary Stem Cell Function (2010) (2)
- Curvature and Convergence (2012) (1)
- Overexpression of Lmo2 initiates T-lymphoblastic leukemia via impaired thymocyte competition. (2023) (1)
- Investigation of human mammary stem and progenitor subpopulations from BRCA1 mutation carriers and noncarriers. (2009) (1)
- Modeling group heteroscedasticity in single-cell RNA-seq pseudo-bulk data (2022) (1)
- Correction: Gene Regulation in Primates Evolves under Tissue-Specific Selection Pressures (2009) (1)
- Prolonging JAK/STAT signaling by deletion of osteocytic SOCS3 results in a profound sex-divergent change in trabecular bone mass (2014) (1)
- Correction: The histone acetyltransferase HBO1 promotes efficient tip cell sprouting during angiogenesis. (2021) (1)
- diffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data (2015) (1)
- Chapter 7: Generalized Linear Models: Inference (2018) (1)
- Abstract S2-04: RANK ligand as a target for breast cancer prevention inBRCA1mutation carriers (2017) (1)
- Chapter 2: Linear Regression Models (2018) (1)
- Activation-induced re-organization of chromatin in human T cells (2020) (1)
- Attenuation of TCR-induced transcription by Bach2 controls regulatory T cell differentiation and homeostasis (2020) (1)
- Author Correction: The neuropeptide VIP confers anticipatory mucosal immunity by regulating ILC3 activity (2020) (1)
- Loss of TAF8 causes TFIID dysfunction and p53-mediated apoptotic neuronal cell death (2022) (1)
- Increased autophagy in ephrinB2 deficient osteocytes is associated with hypermineralized, brittle bones (2018) (1)
- of digital gene expression data User's Guide (2012) (1)
- Chapter 3: Linear Regression Models: Diagnostics and Model-Building (2018) (1)
- Responses Biased toward a Follicular Helper via Clec9A Induces Potent CD4 T Cell Targeting Antigen to Mouse Dendritic Cells (2014) (1)
- Multi-level remodelling of chromatin underlying activation of human T cells (2021) (1)
- Abstract PD7-07: Synergistic targeting of CDK4/6 and BCL-2 pathways in estrogen receptor positive breast cancer (2019) (1)
- Publisher Correction: Barcoding reveals complex clonal behavior in patient-derived xenografts of metastatic triple negative breast cancer (2019) (1)
- Differential requirement for the Polycomb repressor complex 2 in dendritic cell and tissue-resident myeloid cell homeostasis (2021) (1)
- Separate-channel analysis of two-channel microarrays: recovering inter-spot information (2013) (1)
- Differential co-expression-based detection of conditional relationships in transcriptional data: comparative analysis and application to breast cancer (2019) (1)
- LYMPHOID NEOPLASIA MOZ regulates B-cell progenitors and , consequently , Moz haploinsuf fi ciency dramatically retards MYC-induced lymphoma development (2015) (1)
- Functional transcriptome analysis of the postnatal brain of the Ts1Cje mouse model for Down syndrome reveals global disruption of interferon-related molecular networks (2014) (1)
- An Erg driven transcriptional program controls B-lymphopoiesis (2019) (1)
- Chapter 1: Statistical Models (2018) (1)
- Chapter 6: Generalized Linear Models: Estimation (2018) (1)
- In vivo genome‐editing screen identifies tumor suppressor genes that cooperate with Trp53 loss during mammary tumorigenesis (2021) (1)
- Changes in the composition and function of the gut microbiome accompany type 1 diabetes in pregnancy (2020) (1)
- Histone Deacetylase Inhibitor Panobinostat Induces Clinical Responses with Associated Alterations in Gene Expression Profiles in CutaneousT-Cell Lymphoma (2008) (1)
- Erratum: The transcription factor IRF4 is essential for TCR affinity-mediated metabolic programming and clonal expansion of T cells (Nature Immunology (2013) 14 (1155-1165 )) (2014) (1)
- SIDT 2 Transports Extrace llular dsRNA into the Cytoplasm for Innate Immune Recognition Graphical (2017) (1)
- Integration of microRNA signatures of distinct mammary epithelial cell types with their gene expression and epigenetic portraits (2015) (1)
- Barcoding reveals complex clonal behavior in patient-derived xenografts of metastatic triple negative breast cancer (2019) (1)
- R code and downstream analysis objects for the scRNA-seq atlas of human breast spanning normal, preneoplastic and tumorigenic states (2021) (0)
- CTL differentiation and function (WS-108) Chairpersons: Hideo Yagita, Laurence Boumsell (2010) (0)
- Reversible Tumor Suppression By Ikzf1/Ikaros in Mouse Models of BCR-ABL1+ B-ALL (2014) (0)
- Appendix: Further details on the background correction models and their implementation (2007) (0)
- Chapter 12: Tweedie GLMs (2018) (0)
- Differential Expression Analysis of Microarray Experiments (2005) (0)
- Molecular and Cellular Pathobiology Epigenetic Regulator Smchd 1 Functions as a Tumor Suppressor (2013) (0)
- Nonlinear Regression-Extensions† (2014) (0)
- Abstract P3-11-05: RANK ligand is a target for breast cancer prevention inBRCA1mutation carriers (2016) (0)
- Acuity through discolored lenses. (1993) (0)
- Stem cell plasticity, acetylation of H3K14, and de novo gene activation rely on KAT7. (2023) (0)
- The neuropeptide VIP confers anticipatory mucosal immunity by regulating ILC3 activity (2019) (0)
- An Erg-driven transcriptional program controls B cell lymphopoiesis (2020) (0)
- Differentially expressed genes in cardiac tissue from the hypertrophic heart rat (2005) (0)
- Double Generalized Linear Models YYYY No org found YYY: Approximate REML and Diagnostics (1999) (0)
- Integrin beta7 Data: Direct comparison with dye-swaps (2005) (0)
- PT430 Involvement of Th17 cytokines in acute rheumatic fever (2014) (0)
- Comparative Evaluation of River Sampling Programs (1999) (0)
- Vasoactive intestinal peptide confers anticipatory mucosal immunity by regulating ILC3 activity (2019) (0)
- Abstract P2-09-01: Targeting BCL-2 with the BH3 mimetic ABT-199 in ER-positive breast cancer (2013) (0)
- Missing values are informative in label-free shotgun proteomics data: estimating the detection probability curve (2022) (0)
- PT277 Group A Streptococcus Induces a TH17 Response in Acute Rheumatic Fever Effectively Targeted by Drug Repurposing (2016) (0)
- Multi-Level Chromosome Remodeling Underlying Activation of Human T Cells (2019) (0)
- Single cell transcriptome atlas of mouse mammary epithelial cells across development (2021) (0)
- Inhibitors of histone acetyltransferases KAT6A/B induce senescence and arrest tumour growth (2018) (0)
- Profiling half-back play in rugby union and the impact of substitutions (2018) (0)
- Targeting BCL-2–expressing basal-like breast cancer with BH3-mimetics (2012) (0)
- Type 1 diabetes in pregnancy is associated with distinct changes in the composition and function of the gut microbiome (2021) (0)
- Neither random nor censored: estimating intensity-dependent probabilities for missing values in label-free proteomics. (2023) (0)
- Innate immune responses and type 1 diabetes: A role for a long non-coding RNA? (2014) (0)
- PD08-02: Targeting BCL-2 Expressing Breast Tumors with BH3-Mimetics – A New Class of Drugs in Breast Cancer? (2011) (0)
- The monocytic leukaemia zinc finger (MOZ) protein is a repressor of cellular senescence, and haploinsufficiency for MOZ increases survival 3-fold in the Eμ-Myc lymphoma model (2013) (0)
- Probing IKAROS functions in B-ALL using novel mouse models (2014) (0)
- Targeting BCL-2–expressing basal-like breast cancer with BH3-mimetics (2012) (0)
- Publisher Correction: Barcoding reveals complex clonal behavior in patient-derived xenografts of metastatic triple negative breast cancer (2019) (0)
- Abstract 18175: Predicting Low-grade Rejection After Heart Transplantation In Children Using Whole Genome Sequencing (2016) (0)
- R code and downstream analysis objects for the scRNA-seq atlas of normal and tumorigenic human breast tissue (2022) (0)
- Mutation Present with Only a Mild Common Human 13-Base Pair Deletion Aire-Deficient C57BL/6 Mice Mimicking the (2013) (0)
- Survey of activation-induced genome architecture reveals a novel enhancer of Myc (2022) (0)
- Mechanisms of tumour-selective apoptosis induced by the histone deacetylase inhibitor vorinostat (2008) (0)
- Platelets Play a Protective Role in Erythrocytic Stage Malaria Infection. (2009) (0)
- Panel Discussion Using the Computer in an Introductory Statistics Course at Tertiary Level (2006) (0)
- Brain Memory CD8 T Cells Isolated from the The Molecular Signature of Tissue Resident (2012) (0)
- The intent of this section is to publish very small articles that contain interesting, timely, and useful new results for application to statistical graphics and computing. Any submission that will not (2016) (0)
- Achtman a Preclinical Model of Severe Malaria Effective Adjunctive Therapy by an Innate Defense Regulatory Peptide in (2012) (0)
- Congenic mouse strains identify a novel gene for which allelic variation affects susceptibility to type 1 diabetes (47.9) (2011) (0)
- Nonlinear regression (2001) (0)
- Identification of diploid platelet-forming cells prior to the emergence of polyploidy megakaryocyte in the mouse embryo (2014) (0)
- Numerical Integration (Simpson’s Rule) (2018) (0)
- Tissue-resident ductal macrophages survey the mammary epithelium and facilitate tissue remodelling (2020) (0)
- Chapter 5: Generalized Linear Models: Structure (2018) (0)
- stress hematopoiesis in mice is required for self-renewal of hematopoietic stem cells during Erg (2011) (0)
- S17 Breast stem and progenitor cells in cancer – Therapeutic implications (2011) (0)
- DIFFERENCE THRESHOLDS FOR ODOR DETECTION BY AN AQUATIC ANIMAL (1987) (0)
- ApoAI Data: Two groups compared through a common reference (2005) (0)
- Drosophila Embryogenesis Time Course Data (2005) (0)
- Chapter 13: Extra Problems (2018) (0)
- Identifying associations between genomic alterations in tumors. (2013) (0)
- Author Correction: The neuropeptide VIP confers anticipatory mucosal immunity by regulating ILC3 activity (2020) (0)
- Correction: Corrigendum: The transcription factor IRF4 is essential for TCR affinity–mediated metabolic programming and clonal expansion of T cells (2014) (0)
- Dividing out quantification uncertainty allows efficient assessment of differential transcript expression (2023) (0)
- Mechanisms of Tumor Suppression by the Hematopoietic Transcription Factor PU.1. (2012) (0)
- 89. Modulation of regulatory and cytotoxic T cell expression signature in first demyelinating events and early multiple sclerosis (2010) (0)
- NF kappa B1 suppresses intestinal-type gastric cancer development by preventing chronic inflammation in the stomach (2016) (0)
- Abstract SY12-03: Getting abreast of the mammary epithelial hierarchy and breast cancer (2011) (0)
- Socs 3 is a target of oncostatin M in osteocytes that is required for normal bone formation (2013) (0)
- Mutant p53 Enhances the Development and Sustained Growth of MYC-Driven Lymphoma and Exerts a Dominant Negative Effect Preferentially Deregulating Pathways for Metabolism and DNA Repair (2016) (0)
- 03.readingdata Reading Microarray Data from Files Reading Intensity Data Identifying Control Spots Summarizing Model Fits (2010) (0)
- 191: Impaired antigen presentation following Systemic Inflammatory Response Syndrome (SIRS) is caused by the local induction of a paralysis program in developing dendritic cells (2014) (0)
- Abstract 5024: Unmasking heterogeneity within the adult mammary stem cell compartment (2017) (0)
- Bone strength and mineralization are regulated independently of bone mass by ephrinB2-dependent autophagic processes in osteocytes (2018) (0)
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What Schools Are Affiliated With Gordon K Smyth?
Gordon K Smyth is affiliated with the following schools:
