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Reassessing pharmacogenomic cell sensitivity with multilevel statistical models.
- Published in:
- Biostatistics, 2023, v. 24, n. 4, p. 901, doi. 10.1093/biostatistics/kxac010
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- Publication type:
- Article
Capturing discrete latent structures: choose LDs over PCs.
- Published in:
- Biostatistics, 2023, v. 24, n. 1, p. 1, doi. 10.1093/biostatistics/kxab030
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- Publication type:
- Article
A probabilistic gene expression barcode for annotation of cell types from single-cell RNA-seq data.
- Published in:
- 2022
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- Publication type:
- journal article
Detection and accurate false discovery rate control of differentially methylated regions from whole genome bisulfite sequencing.
- Published in:
- 2019
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- Publication type:
- journal article
Missing data and technical variability in single-cell RNA-sequencing experiments.
- Published in:
- 2018
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- Publication type:
- journal article
Smooth quantile normalization.
- Published in:
- 2018
- By:
- Publication type:
- journal article
Differential expression analysis of RNA-seq data at single-base resolution.
- Published in:
- 2014
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- Publication type:
- journal article
Corrigendum: Differential expression analysis of RNA-seq data at single-base resolution.
- Published in:
- Biostatistics, 2014, v. 15, n. 3, p. 584, doi. 10.1093/biostatistics/kxu022
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- Publication type:
- Article
Differential expression analysis of RNA-seq data at single-base resolution.
- Published in:
- Biostatistics, 2014, v. 15, n. 3, p. 413, doi. 10.1093/biostatistics/kxt053
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- Publication type:
- Article
Removing technical variability in RNA-seq data using conditional quantile normalization.
- Published in:
- Biostatistics, 2012, v. 13, n. 2, p. 204, doi. 10.1093/biostatistics/kxr054
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- Publication type:
- Article
Significance analysis and statistical dissection of variably methylated regions.
- Published in:
- Biostatistics, 2012, v. 13, n. 1, p. 166, doi. 10.1093/biostatistics/kxr013
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- Publication type:
- Article
Accurate genome-scale percentage DNA methylation estimates from microarray data.
- Published in:
- Biostatistics, 2011, v. 12, n. 2, p. 197, doi. 10.1093/biostatistics/kxq055
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- Publication type:
- Article
A multilevel model to address batch effects in copy number estimation using SNP arrays.
- Published in:
- Biostatistics, 2011, v. 12, n. 1, p. 33, doi. 10.1093/biostatistics/kxq043
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- Publication type:
- Article
Redefining CpG islands using hidden Markov models.
- Published in:
- Biostatistics, 2010, v. 11, n. 3, p. 499, doi. 10.1093/biostatistics/kxq005
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- Publication type:
- Article
Frozen robust multiarray analysis (fRMA).
- Published in:
- Biostatistics, 2010, v. 11, n. 2, p. 242, doi. 10.1093/biostatistics/kxp059
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- Publication type:
- Article
Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data.
- Published in:
- Biostatistics, 2007, v. 8, n. 2, p. 485
- By:
- Publication type:
- Article
Weighted Estimation of Harmonic Components in a Musical Sound Signal.
- Published in:
- Journal of Time Series Analysis, 2002, v. 23, n. 1, p. 29, doi. 10.1111/1467-9892.01515
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- Publication type:
- Article
Gene set enrichment analysis made simple.
- Published in:
- Statistical Methods in Medical Research, 2009, v. 18, n. 6, p. 565, doi. 10.1177/0962280209351908
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- Publication type:
- Article
Characterizing batch effects and binding site-specific variability in ChIP-seq data.
- Published in:
- NAR Genomics & Bioinformatics, 2021, v. 3, n. 4, p. 1, doi. 10.1093/nargab/lqab098
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- Publication type:
- Article
Bisulfite-independent analysis of CpG island methylation enables genome-scale stratification of single cells.
- Published in:
- Nucleic Acids Research, 2017, v. 45, n. 10, p. 1, doi. 10.1093/nar/gkx026
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- Publication type:
- Article
Flexible expressed region analysis for RNA-seq with derfinder.
- Published in:
- Nucleic Acids Research, 2017, v. 45, n. 2, p. 1, doi. 10.1093/nar/gkw852
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- Publication type:
- Article
The Gene Expression Barcode 3.0: improved data processing and mining tools.
- Published in:
- Nucleic Acids Research, 2014, v. 42, n. D1, p. D938, doi. 10.1093/nar/gkt1204
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- Publication type:
- Article
The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes.
- Published in:
- Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D1011, doi. 10.1093/nar/gkq1259
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- Publication type:
- Article
Consolidated strategy for the analysis of microarray spike-in data.
- Published in:
- Nucleic Acids Research, 2008, v. 36, n. 17, p. e108, doi. 10.1093/nar/gkn430
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- Publication type:
- Article
Robust decomposition of cell type mixtures in spatial transcriptomics.
- Published in:
- Nature Biotechnology, 2022, v. 40, n. 4, p. 517, doi. 10.1038/s41587-021-00830-w
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- Publication type:
- Article
Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation.
- Published in:
- Nature Biotechnology, 2016, v. 34, n. 12, p. 1287, doi. 10.1038/nbt.3682
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- Publication type:
- Article
Sequencing technology does not eliminate biological variability.
- Published in:
- Nature Biotechnology, 2011, v. 29, n. 7, p. 572, doi. 10.1038/nbt.1910
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- Publication type:
- Article
Increased methylation variation in epigenetic domains across cancer types.
- Published in:
- Nature Genetics, 2011, v. 43, n. 8, p. 768, doi. 10.1038/ng.865
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- Publication type:
- Article
Reply to “Reassessing the abundance of H3K9me2 chromatin domains in embryonic stem cells”.
- Published in:
- 2010
- By:
- Publication type:
- Letter
Differential methylation of tissue- and cancer-specific CpG island shores distinguishes human induced pluripotent stem cells, embryonic stem cells and fibroblasts.
- Published in:
- Nature Genetics, 2009, v. 41, n. 12, p. 1350, doi. 10.1038/ng.471
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- Publication type:
- Article
The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores.
- Published in:
- Nature Genetics, 2009, v. 41, n. 2, p. 178, doi. 10.1038/ng.298
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- Publication type:
- Article
Large histone H3 lysine 9 dimethylated chromatin blocks distinguish differentiated from embryonic stem cells.
- Published in:
- Nature Genetics, 2009, v. 41, n. 2, p. 246, doi. 10.1038/ng.297
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- Publication type:
- Article
Orchestrating high-throughput genomic analysis with Bioconductor.
- Published in:
- Nature Methods, 2015, v. 12, n. 2, p. 115, doi. 10.1038/nmeth.3252
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- Publication type:
- Article
Recommendations for the design and analysis of epigenome-wide association studies.
- Published in:
- Nature Methods, 2013, v. 10, n. 10, p. 949, doi. 10.1038/nmeth.2632
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- Publication type:
- Article
Intensity normalization improves color calling in SOLiD sequencing.
- Published in:
- 2010
- By:
- Publication type:
- Letter
A gene expression bar code for microarray data.
- Published in:
- Nature Methods, 2007, v. 4, n. 11, p. 911, doi. 10.1038/nmeth1102
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- Publication type:
- Article
Stacking the deck: double-tiled DNA microarrays.
- Published in:
- Nature Methods, 2006, v. 3, n. 11, p. 903, doi. 10.1038/nmeth951
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- Publication type:
- Article
Corrigendum: Multiple-laboratory comparison of microarray platforms.
- Published in:
- 2005
- By:
- Publication type:
- Correction Notice
Multiple-laboratory comparison of microarray platforms.
- Published in:
- Nature Methods, 2005, v. 2, n. 5, p. 345, doi. 10.1038/nmeth756
- By:
- Publication type:
- Article
Fast Wavelet Based Functional Models for Transcriptome Analysis with Tiling Arrays.
- Published in:
- Statistical Applications in Genetics & Molecular Biology, 2012, v. 11, n. 1, p. 1, doi. 10.2202/1544-6115.1726
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- Publication type:
- Article
Outcomes of Adults with Cystic Fibrosis Infected with Antibiotic-Resistant Pseudomonas aeruginosa.
- Published in:
- Respiration, 2006, v. 73, n. 1, p. 27, doi. 10.1159/000087686
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- Publication type:
- Article
DNA binding analysis of rare variants in homeodomains reveals homeodomain specificity-determining residues.
- Published in:
- Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-47396-0
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- Publication type:
- Article
Differential richness inference for 16S rRNA marker gene surveys.
- Published in:
- Genome Biology, 2022, v. 23, n. 1, p. 1, doi. 10.1186/s13059-022-02722-x
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- Publication type:
- Article
Genome-Wide DNA Methylation Scan in Major Depressive Disorder.
- Published in:
- PLoS ONE, 2012, v. 7, n. 4, p. 1, doi. 10.1371/journal.pone.0034451
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- Publication type:
- Article
Model-Based Quality Assessment and Base-Calling for Second-Generation Sequencing Data.
- Published in:
- Biometrics, 2010, v. 66, n. 3, p. 665, doi. 10.1111/j.1541-0420.2009.01353.x
- By:
- Publication type:
- Article
Generalized Additive Selection Models for the Analysis of Studies with Potentially Nonignorable Missing Outcome Data.
- Published in:
- Biometrics, 2003, v. 59, n. 3, p. 601, doi. 10.1111/1541-0420.00070
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- Publication type:
- Article
Assessing Homeostasis Through Circadian Patterns.
- Published in:
- Biometrics, 2001, v. 57, n. 4, p. 1228, doi. 10.1111/j.0006-341X.2001.01228.x
- By:
- Publication type:
- Article
Proceedings of the third international molecular pathological epidemiology (MPE) meeting.
- Published in:
- 2017
- By:
- Publication type:
- journal article
Proceedings of the second international molecular pathological epidemiology (MPE) meeting.
- Published in:
- Cancer Causes & Control, 2015, v. 26, n. 7, p. 959, doi. 10.1007/s10552-015-0596-2
- By:
- Publication type:
- Article
Tackling the widespread and critical impact of batch effects in high-throughput data.
- Published in:
- 2010
- By:
- Publication type:
- review