Sandrine Dudoit
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French-American bioinformatician
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Sandrine Dudoitmathematics Degrees
Mathematics
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#6946
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Statistics
#328
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Sandrine Dudoitbiology Degrees
Biology
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Bioinformatics
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#88
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Computational Biology
#136
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#136
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Mathematics Biology
Sandrine Dudoit's Degrees
- PhD Statistics University of California, Berkeley
- Masters Statistics University of California, Berkeley
- Bachelors Mathematics Université Paris Cité
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Why Is Sandrine Dudoit Influential?
(Suggest an Edit or Addition)According to Wikipedia, Sandrine Dudoit is a professor of statistics and public health at the University of California, Berkeley. Her research applies statistics to microarray and genetic data; she is known as one of the founders of the open-source Bioconductor project for the development of bioinformatics software.
Sandrine Dudoit'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
- Bioconductor: open software development for computational biology and bioinformatics (2004) (12224)
- Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. (2002) (3709)
- Comparison of Discrimination Methods for the Classification of Tumors Using Gene Expression Data (2002) (2855)
- Bioinformatics and Computational Biology Solutions Using R and Bioconductor (Statistics for Biology and Health) (2005) (2247)
- Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments (2010) (1651)
- STATISTICAL METHODS FOR IDENTIFYING DIFFERENTIALLY EXPRESSED GENES IN REPLICATED cDNA MICROARRAY EXPERIMENTS (2002) (1611)
- Normalization of RNA-seq data using factor analysis of control genes or samples (2014) (1303)
- Multiple Hypothesis Testing in Microarray Experiments (2003) (1163)
- Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics (2017) (1101)
- Diversity, topographic differentiation, and positional memory in human fibroblasts (2002) (1065)
- Gene expression patterns in human liver cancers. (2002) (871)
- Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia (2020) (833)
- A prediction-based resampling method for estimating the number of clusters in a dataset (2002) (773)
- The Developmental Transcriptome of Drosophila melanogaster (2010) (766)
- Biases in Illumina transcriptome sequencing caused by random hexamer priming (2010) (695)
- GC-Content Normalization for RNA-Seq Data (2011) (664)
- Comparison of Methods for Image Analysis on cDNA Microarray Data (2002) (552)
- Bagging to Improve the Accuracy of A Clustering Procedure (2003) (546)
- Survival ensembles. (2006) (473)
- A general and flexible method for signal extraction from single-cell RNA-seq data (2018) (450)
- Normalization for cDNA microarry data (2001) (448)
- Stereotyped and specific gene expression programs in human innate immune responses to bacteria (2002) (447)
- Multiple Testing Procedures with Applications to Genomics (2007) (442)
- Normalizing single-cell RNA sequencing data: challenges and opportunities (2017) (331)
- Open source software for the analysis of microarray data. (2003) (293)
- Microarray expression profiling identifies genes with altered expression in HDL-deficient mice. (2000) (273)
- Multiple Testing Procedures: the multtest Package and Applications to Genomics (2005) (258)
- Unified Cross-Validation Methodology For Selection Among Estimators and a General Cross-Validated Adaptive Epsilon-Net Estimator: Finite Sample Oracle Inequalities and Examples (2003) (258)
- Conservation of an RNA regulatory map between Drosophila and mammals. (2011) (246)
- Trajectory-based differential expression analysis for single-cell sequencing data (2019) (239)
- Resampling-based multiple testing for microarray data analysis (2003) (219)
- Stage II colon cancer prognosis prediction by tumor gene expression profiling. (2006) (217)
- Asymptotic Optimality of Likelihood-Based Cross-Validation (2004) (208)
- Augmentation Procedures for Control of the Generalized Family-Wise Error Rate and Tail Probabilities for the Proportion of False Positives (2004) (194)
- Multiple Testing. Part I. Single-Step Procedures for Control of General Type I Error Rates (2004) (193)
- A multimodal cell census and atlas of the mammalian primary motor cortex (2020) (190)
- Asymptotics of cross-validated risk estimation in estimator selection and performance assessment (2005) (182)
- Deconstructing Olfactory Stem Cell Trajectories at Single-Cell Resolution. (2017) (153)
- Classification in microarray experiments (2003) (147)
- Oracle inequalities for multi-fold cross validation (2006) (146)
- The Cross-Validated Adaptive Epsilon-Net Estimator (2006) (139)
- A score test for the linkage analysis of qualitative and quantitative traits based on identity by descent data from sib-pairs. (2000) (137)
- Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications (2018) (133)
- Multiple Testing. Part II. Step-Down Procedures for Control of the Family-Wise Error Rate (2004) (124)
- Colon cancer prognosis prediction by gene expression profiling (2005) (115)
- A general framework for statistical performance comparison of evolutionary computation algorithms (2006) (112)
- Polygenic and directional regulatory evolution across pathways in Saccharomyces (2010) (94)
- Exploration of global gene expression in human liver steatosis by high-density oligonucleotide microarray (2006) (94)
- A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex (2021) (94)
- Diverse transcriptional programs associated with environmental stress and hormones in the Arabidopsis receptor-like kinase gene family. (2009) (93)
- Bioconductor R Packages for Exploratory Analysis and Normalization of cDNA Microarray Data (2003) (91)
- Genome-Wide Identification of Alternative Splice Forms Down-Regulated by Nonsense-Mediated mRNA Decay in Drosophila (2009) (91)
- Tree-based multivariate regression and density estimation with right-censored data (2004) (91)
- GenomeGraphs: integrated genomic data visualization with R (2009) (78)
- The Establishment of Gene Silencing at Single-Cell Resolution (2009) (76)
- Ischemic preconditioning modulates the expression of several genes, leading to the overproduction of IL‐1Ra, iNOS, and Bcl‐2 in a human model of liver ischemia‐reperfusion (2005) (73)
- Prognosis of stage II colon cancer by non-neoplastic mucosa gene expression profiling (2007) (72)
- Multiple Testing Procedures and Applications to Genomics (2004) (70)
- More power via graph-structured tests for differential expression of gene networks (2012) (70)
- Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-Seq. (2019) (67)
- Multiple Testing Methods For ChIP - Chip High Density Oligonucleotide Array Data (2006) (66)
- An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types (2020) (66)
- A Method to Increase the Power of Multiple Testing Procedures Through Sample Splitting (2006) (62)
- Injury Activates Transient Olfactory Stem Cell States with Diverse Lineage Capacities. (2017) (57)
- Filtering procedures for untargeted LC-MS metabolomics data (2019) (56)
- Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-Seq (2017) (54)
- Applications of Resampling Methods to Estimate the Number of Clusters and to Improve the Accuracy of (2001) (53)
- Resampling-Based Multiple Hypothesis Testing with Applications to Genomics: New Developments in the R/Bioconductor Package multtest (2009) (51)
- Silencing of Odorant Receptor Genes by G Protein βγ Signaling Ensures the Expression of One Odorant Receptor per Olfactory Sensory Neuron (2014) (50)
- An untargeted metabolomics method for archived newborn dried blood spots in epidemiologic studies (2017) (47)
- ZINB-WaVE: A general and flexible method for signal extraction from single-cell RNA-seq data (2017) (44)
- Novel Low Abundance and Transient RNAs in Yeast Revealed by Tiling Microarrays and Ultra High–Throughput Sequencing Are Not Conserved Across Closely Related Yeast Species (2008) (44)
- Gene Expression Profiling of Nonneoplastic Mucosa May Predict Clinical Outcome of Colon Cancer Patients (2005) (38)
- Gains in Power from Structured Two-Sample Tests of Means on Graphs (2010) (36)
- Distance Measures in DNA Microarray Data Analysis (2005) (35)
- Supervised Detection of Regulatory Motifs in DNA Sequences (2003) (34)
- Metabolomics of neonatal blood spots reveal distinct phenotypes of pediatric acute lymphoblastic leukemia and potential effects of early-life nutrition. (2019) (33)
- Resampling‐Based Empirical Bayes Multiple Testing Procedures for Controlling Generalized Tail Probability and Expected Value Error Rates: Focus on the False Discovery Rate and Simulation Study (2008) (32)
- clusterExperiment and RSEC: A Bioconductor package and framework for clustering of single-cell and other large gene expression datasets (2018) (32)
- Multiple Testing Procedures for Controlling Tail Probability Error Rates (2004) (28)
- Multiple Testing. Part III. Procedures for Control of the Generalized Family-Wise Error Rate and Proportion of False Positives (2004) (28)
- Asymptotics of Cross-Validated Risk Estimation in Model Selection and Performance Assessment (2003) (26)
- A score test for linkage using identity by descent data from sibships (1999) (25)
- Loss-based estimation with cross-validation: applications to microarray data analysis (2003) (24)
- Multiple tests of association with biological annotation metadata (2008) (23)
- Test Statistics Null Distributions in Multiple Testing: Simulation Studies and Applications to Genomics (2005) (20)
- Untargeted adductomics of Cys34 modifications to human serum albumin in newborn dried blood spots (2019) (20)
- Introduction to Classification in Microarray Experiments (2003) (20)
- Cys34 Adductomics Links Colorectal Cancer with the Gut Microbiota and Redox Biology. (2019) (19)
- Multiple Testing Procedures (2004) (17)
- Bioconductor workflow for single-cell RNA sequencing: Normalization, dimensionality reduction, clustering, and lineage inference (2017) (17)
- Untargeted lipidomic features associated with colorectal cancer in a prospective cohort (2018) (17)
- Untargeted adductomics of newborn dried blood spots identifies modifications to human serum albumin associated with childhood leukemia. (2019) (16)
- The Role of Spike-In Standards in the Normalization of RNA-seq (2014) (16)
- Comparing Segmentation Methods for Genome Annotation Based on RNA-Seq Data (2014) (15)
- A general and flexible method for signal extraction from single-cell RNA-seq data (2018) (14)
- A fine-scale linkage-disequilibrium measure based on length of haplotype sharing. (2006) (14)
- Microarray Expression Profiling Identifies Genes with Altered Expression in HDL-Deficient Mice (2000) (14)
- Triangle Constraints for Sib-Pair Identity by Descent Probabilities under a General Multilocus Model for Disease Susceptibility (1998) (13)
- Exploring High-Dimensional Biological Data with Sparse Contrastive Principal Component Analysis (2019) (13)
- Asymptotically optimal model selection method with right censored outcomes (2004) (13)
- Comprar Multiple Testing Procedures with Applications to Genomics | Dudoit, Sandrine | 9780387493169 | Springer (2007) (12)
- Power and robustness of a score test for linkage analysis of quantitative traits using identity by descent data on sib pairs (2001) (11)
- Exploring High-Dimensional Biological Data with Sparse Contrastive Principal Component Analysis. (2020) (10)
- Publisher Correction: A general and flexible method for signal extraction from single-cell RNA-seq data (2019) (10)
- A deletion/substitution/addition algorithm for classification neural networks, with applications to biomedical data (2008) (9)
- Observation weights unlock bulk RNA-seq tools for zero inflation and single-cell applications (2018) (8)
- Multiple Hypothesis Testing (2008) (8)
- Joint Multiple Testing Procedures for Graphical Model Selection with Applications to Biological Networks (2009) (7)
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression (2021) (7)
- Klf5 establishes bi-potential cell fate by dual regulation of ICM and TE specification genes (2021) (7)
- Bioconductor's multtest package (2004) (6)
- cvCovEst: Cross-validated covariance matrix estimator selection and evaluation in R (2021) (4)
- Power of a score test for quantitative trait linkage analysis of relative pairs (2000) (4)
- Cross-Validated Loss-Based Covariance Matrix Estimator Selection in High Dimensions (2021) (4)
- Selected Works of Terry Speed (2012) (4)
- Optimization of the Architecture of Neural Networks Using a Deletion/Substitution/Addition Algorithm (2005) (3)
- Untargeted metabolomics of newborn dried blood spots reveals sex-specific associations with pediatric acute myeloid leukemia. (2021) (3)
- CALDERA: finding all significant de Bruijn subgraphs for bacterial GWAS (2021) (3)
- Extending the HSA-Cys34-Adductomics Pipeline to Modifications at Lys525. (2021) (3)
- Overview of Multiple Testing Procedures (2008) (3)
- Normalization: Bioconductor's marray package (2006) (2)
- CHAPTER 3 Classification in microarray experiments (2003) (2)
- Applications of Multiple Testing Procedures : ALL Data (2005) (2)
- Data-adaptive pipeline for filtering and normalizing metabolomics data (2018) (2)
- [Gene expression profiling in colon cancer]. (2007) (2)
- adductomicsR: A package for detection and quantification of protein adducts from mass spectra of tryptic digests (2018) (1)
- A flexible approach for predictive biomarker discovery. (2022) (1)
- Bioconductor ’ s marray package : Plotting component (2006) (1)
- Accurate Determination of Bacterial Abundances in Human Metagenomes Using Full-length 16S Sequencing Reads (2017) (1)
- Extensions to a score test for genetic linkage with identity by descent data (2003) (1)
- Multiple Tests of Association with Biological (2006) (1)
- Quantification and Visualization of LD Patterns and Identification of Haplotype Blocks (2004) (1)
- Resampling-Based Empirical Bayes multiple Testing Procedures for Controlling Generalized Tail Probability Error Rates (2008) (1)
- Filtering procedures for untargeted LC-MS metabolomics data (2019) (1)
- HIV-1 Sequence Variation and Viral Replication Capacity (2008) (1)
- Genetic Mapping of Complex Human Traits Using Single Nucleotide Polymorphisms: The ObeLinks Project (2008) (1)
- Special Issue on Computational Statistical Methods for Genomics and Systems Biology (2012) (1)
- Improving replicability in single-cell RNA-Seq cell type discovery with Dune (2020) (1)
- Supervised Detection of Regulatory Motifs in (2003) (0)
- Abstract C065: Breast cancer risk in U.S-born Latina women: potential role of reactive electrophiles (2020) (0)
- One-Carbon (Folate) Metabolism Pathway at Birth and Risk of Childhood Acute Lymphoblastic Leukemia: A Biomarker Study in Newborns (2023) (0)
- Comparing Segmentation Methods for Genome Annotation Based on RNA-Seq Data (2013) (0)
- Prognosis prediction of stage II colon cancer by gene expression profiling. (2006) (0)
- Simulation Studies: Assessment of Test Statistics Null Distributions (2008) (0)
- Single-Step Multiple Testing Procedures for Controlling General Type I Error Rates, Θ(Fvn) (2008) (0)
- Untargeted metabolomics profiles of newborn dried blood spots and pediatric acute myeloid leukemia: a pilot study (2020) (0)
- PB HLTH 240A: Advanced Categorical Data Analysis Fall 2007 (2007) (0)
- mammals and Drosophila Conservation of an RNA regulatory map between Material (2010) (0)
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression. (2021) (0)
- Trajectory-based differential expression analysis for single-cell sequencing data (2020) (0)
- Untargeted Metabolomics of Archived Dried Blood Spots Reveals Lipid Modulation at Birth Associated with Pediatric Acute Lymphoblastic Leukemia (2018) (0)
- scPCA: A toolbox for sparse contrastive principal component analysis in R (2020) (0)
- Multiple Hypothesis Testing in Microarray Data Analysis (2003) (0)
- Year Paper Multiple Hypothesis Testing in Microarray Experiments (2016) (0)
- Step-Down Multiple Testing Procedures for Controlling the Family-Wise Error Rate (2008) (0)
- A nonparametric framework for treatment effect modifier discovery in high dimensions (2023) (0)
- Augmentation Multiple Testing Procedures for Controlling Generalized Tail Probability Error Rates (2008) (0)
- Identification of Regulatory Motifs in DNA Sequences (2003) (0)
- Untargeted lipidomic features associated with colorectal cancer in a prospective cohort (2018) (0)
- Year Paper GC-Content Normalization for RNA-Seq Data (0)
- cosmo: An R package for the supervised detection of conserved motifs in DNA sequences. (2006) (0)
- Publisher Correction: A general and flexible method for signal extraction from single-cell RNA-seq data (2019) (0)
- An untargeted metabolomics method for archived newborn dried blood spots in epidemiologic studies (2017) (0)
- Identification of Differentially Expressed and Co-Expressed Genes in High-Throughput Gene Expression Experiments (2008) (0)
- IBD Configuration Transition Matrices and Linkage Score Tests for Unilineal Relative Pairs (2003) (0)
- Source Software for the Analysis of Microarray Data (0)
- Statistical methods for the characterisation of tumour types using cDNA microarray data (1999) (0)
- Injury Activates Transient Olfactory StemCell States with Diverse Lineage Capacities Graphical (2017) (0)
- cosmoGUI: An R package for interactively constructing constraint sets as used by the cosmo R package. (2007) (0)
- Loss-Based Estimation with Evolutionary Algorithms and Cross-Validation (2010) (0)
- Trajectory inference across multiple conditions with condiments: (2021) (0)
- Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics (2018) (0)
- Normalization benchmark of ATAC-seq datasets shows the importance of accounting for GC-content effects (2021) (0)
- Additional File_13 Additional References (2014) (0)
- Stage III colon cancer prognosis prediction by tumor gene expression profiling (2006) (0)
- Test Statistics Null Distribution (2008) (0)
- Stage III colon cancer prognosis prediction by gene expression profiling. (2006) (0)
- Performance Assessment and Selection of Normalization Procedures forSingle-Cell RNA-Seq (2019) (0)
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