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One or more keywords matched the following properties of Quackenbush, John
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preferred title Henry Pickering Walcott Professor of Computational Biology and Bioinformatics
One or more keywords matched the following items that are connected to Quackenbush, John
Item TypeName
Academic Article Minimum information about a microarray experiment (MIAME)-toward standards for microarray data.
Academic Article Standards for microarray data.
Academic Article Submission of microarray data to public repositories.
Academic Article Extracting meaning from functional genomics experiments.
Academic Article Gene index analysis of the human genome estimates approximately 120,000 genes.
Academic Article Discrimination of non-protein-coding transcripts from protein-coding mRNA.
Academic Article Genesis: cluster analysis of microarray data.
Academic Article Integrative annotation of 21,037 human genes validated by full-length cDNA clones.
Academic Article Computational analysis of microarray data.
Academic Article Wrestling with SUMO and bio-ontologies.
Academic Article Computational approaches to analysis of DNA microarray data.
Academic Article Enrichment of gene-coding sequences in maize by genome filtration.
Academic Article Functional annotation of a full-length mouse cDNA collection.
Academic Article The TIGR rice genome annotation resource: annotating the rice genome and creating resources for plant biologists.
Academic Article The underlying principles of scientific publication.
Academic Article Integrating computationally assembled mouse transcript sequences with the Mouse Genome Informatics (MGI) database.
Academic Article Standardizing the standards.
Academic Article Genomics. Microarrays--guilt by association.
Academic Article A cricket Gene Index: a genomic resource for studying neurobiology, speciation, and molecular evolution.
Academic Article Viral perturbations of host networks reflect disease etiology.
Academic Article attract: A method for identifying core pathways that define cellular phenotypes.
Academic Article A robust method for the amplification of RNA in the sense orientation.
Academic Article BmiGI: a database of cDNAs expressed in Boophilus microplus, the tropical/southern cattle tick.
Academic Article Development of the Minimum Information Specification for In Situ Hybridization and Immunohistochemistry Experiments (MISFISHIE).
Academic Article Open-source software accelerates bioinformatics.
Academic Article An improved empirical bayes approach to estimating differential gene expression in microarray time-course data: BETR (Bayesian Estimation of Temporal Regulation).
Academic Article Sources of variation in baseline gene expression levels from toxicogenomics study control animals across multiple laboratories.
Academic Article Data-driven normalization strategies for high-throughput quantitative RT-PCR.
Academic Article Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE).
Academic Article Development and evaluation of an automated annotation pipeline and cDNA annotation system.
Academic Article Rice bioinformatics. analysis of rice sequence data and leveraging the data to other plant species.
Academic Article Cross-referencing eukaryotic genomes: TIGR Orthologous Gene Alignments (TOGA).
Academic Article Data standards for Omics data: the basis of data sharing and reuse.
Academic Article iBBiG: iterative binary bi-clustering of gene sets.
Academic Article A microRNA activity map of human mesenchymal tumors: connections to oncogenic pathways; an integrative transcriptomic study.
Academic Article Data standards: a call to action.
Academic Article A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB.
Academic Article Plant database resources at The Institute for Genomic Research.
Academic Article GeneSigDB--a curated database of gene expression signatures.
Academic Article Ovarian reserve status in young women is associated with altered gene expression in membrana granulosa cells.
Academic Article Functional classification analysis of somatically mutated genes in human breast and colorectal cancers.
Academic Article Genomics and proteomics of lung disease: conference summary.
Academic Article Using the TIGR gene index databases for biological discovery.
Academic Article It is time to end the patenting of software.
Academic Article Extracting biology from high-dimensional biological data.
Academic Article Using the DFCI gene index databases for biological discovery.
Concept Computational Biology
Academic Article A tiered hidden Markov model characterizes multi-scale chromatin states.
Academic Article Comparison and validation of genomic predictors for anticancer drug sensitivity.
Academic Article Analyzing networks of phenotypes in complex diseases: methodology and applications in COPD.
Academic Article Genetic control of gene expression at novel and established chronic obstructive pulmonary disease loci.
Academic Article Nac1 Coordinates a Sub-network of Pluripotency Factors to Regulate Embryonic Stem Cell Differentiation.
Grant TM4: Software for High-Dimensional Data Analysis
Grant Interdisciplinary training: Statistical Genetics/Genomics & Computational Biology
Academic Article Merkel Cell Polyomavirus Small T Antigen Promotes Pro-Glycolytic Metabolic Perturbations Required for Transformation.
Academic Article BatchQC: interactive software for evaluating sample and batch effects in genomic data.
Academic Article Estimating gene regulatory networks with pandaR.
Academic Article Biomarker correlation network in colorectal carcinoma by tumor anatomic location.
Academic Article Cancer Informatics: New Tools for a Data-Driven Age in Cancer Research.
Academic Article Cancer subtype identification using somatic mutation data.
Academic Article lionessR: single sample network inference in R.
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  • Molecular Biology Computational
Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.