Browsing Harvard School of Public Health by Harvard-affiliated Author "Dr John Quackenbush"

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Browsing Harvard School of Public Health by Harvard-affiliated Author

Browsing Harvard School of Public Health by Harvard-affiliated Author "Dr John Quackenbush"

Now showing items 1-20 of 22

Angiogenic mRNA and microRNA Gene Expression Signature Predicts a Novel Subtype of Serous Ovarian Cancer

Risch, Thomas; Fan, Jian-Bing; Holton, Kristina; Rubio, Renee; April, Craig; Wickham-Garcia, Eliza; Bentink, Stefan et al. (PLoS ONE, 2012) Link to Published Version
Characterizing the small RNA transcriptome associated with COPD and ILD using next-generation sequencing

Campbell, Joshua D; Luo, Lingqi; Liu, Gang; Xiao, Ji; Gerrein, Joseph; Guardela, Brenda J; Tedrow, John et al. (BMC Proceedings, 2012) Link to Published Version
Comprehensive Genomic Profiling of the Lung Transcriptome in Emphysema and Idiopathic Pulmonary Fibrosis Using RNA-Seq

Kusko, Rebecca L; Brothers, John; Luo, Lingqi; Guardela, Brenda Juan; Tedrow, John; Aleksyev, Yuriy; Yang, Ivana V et al. (BMC Proceedings, 2012) Link to Published Version
A Cricket Gene Index: A Genomic Resource for Studying Neurobiology, Speciation, and Molecular Evolution

Danley, Patrick D; Mullen, Sean P; Liu, Fenglong; Nene, Vishvanath; Shaw, Kerry L; Quackenbush, John (BMC Genomics, 2007) Link to Published Version
Data-Driven Normalization Strategies for High-Throughput Quantitative RT-PCR

Kimura, Yasumasa; Schroder, Kate; Irvine, Katharine M; Hayashizaki, Yoshihide; Suzuki, Harukazu; Hume, David; Mar, Jessica Cara et al. (BMC Bioinformatics, 2009) Link to Published Version
Decomposition of Gene Expression State Space Trajectories

Mar, Jessica Cara; Quackenbush, John (PLoS Computational Biology, 2009) Link to Published Version
Defining an Informativeness Metric for Clustering Gene Expression Data

Wells, Christine A.; Quackenbush, John; Mar, Jessica (Bioinformatics, 2011) Link to Published Version
GeneSigDB: A Manually Curated Database and Resource for Analysis of Gene Expression Signatures

Culhane, Aedín C.; Schröder, Markus S.; Sultana, Razvan; Picard, Shaita C.; Martinelli, Enzo N.; Kelly, Caroline; Kapushesky, Misha et al. (Nucleic Acids Research, 2012) Link to Published Version
GeneSigDB—A Curated Database of Gene Expression Signatures

Culhane, Aedín C.; Schwarzl, Thomas; Sultana, Razvan; Picard, Shaita C.; Lu, Tim H.; Franklin, Katherine R.; French, Simon J. et al. (Nucleic Acids Research, 2009) Link to Published Version
iBBiG: iterative binary bi-clustering of gene sets

Gusenleitner, Daniel; Howe, Eleanor A.; Bentink, Stefan; Quackenbush, John; Culhane, Aedín C. (Bioinformatics, 2012) Link to Published Version
An Improved Empirical Bayes Approach to Estimating Differential Gene Expression in Microarray Time-Course Data: BETR (Bayesian Estimation of Temporal Regulation)

Aryee, Martin J; Gutiérrez-Pabello, José A; Kramnik, Igor; Maiti, Tapabrata; Quackenbush, John (BMC Bioinformatics, 2009) Link to Published Version
Inferring steady state single-cell gene expression distributions from analysis of mesoscopic samples

Rubio, Renee; Mar, Jessica Cara; Quackenbush, John (Genome Biology, 2006) Link to Published Version
Interpreting Cancer Genomes Using Systematic Host Perturbations by Tumour Virus Proteins

Rozenblatt-Rosen, Orit; Deo, Rahul C.; Dricot, Amélie; Askenazi, Manor; Tavares, Maria; Abderazzaq, Fieda; Byrdsong, Danielle et al. (Nature, 2012) Link to Published Version
Moving Beyond Gene Expression: Identification of Lung-Disease-Associated Novel Transcripts and Alternative Splicing by RNA Sequencing

Brothers, John; Kusko, Rebecca; Luo, Lingqi; Guardela, Brenda Juan; Tedrow, John; Alekesyev, Yuriy; Yang, Ivana V et al. (BMC Proceedings, 2012) Link to Published Version
Multiple-Input Multiple-Output Causal Strategies for Gene Selection

Bontempi, Gianluca; Haibe-Kains, Benjamin; Desmedt, Christine; Sotiriou, Christos; Quackenbush, John (BMC Bioinformatics, 2011) Link to Published Version
Predictive Networks: A Flexible, Open Source, Web Application for Integration and Analysis of Human Gene Networks

Olsen, Catharina; Djebbari, Amira; Bontempi, Gianluca; Correll, Mick; Bouton, Christopher; Haibe-Kains, Benjamin; Quackenbush, John (Nucleic Acids Research, 2012) Link to Published Version
A Robust Method for the Amplification of RNA in the Sense Orientation

Marko, Nicholas F; Frank, Bryan; Lee, Norman H; Quackenbush, John (BMC Genomics, 2005) Link to Published Version
Seeded Bayesian Networks: Constructing Genetic Networks from Microarray Data

Djebbari, Amira; Quackenbush, John (BMC Systems Biology, 2008) Link to Published Version
Sources of Variation in Baseline Gene Expression Levels from Toxicogenomics Study Control Animals across Multiple Laboratories

Boedigheimer, Michael J; Wolfinger, Russell D; Bass, Michael B; Bushel, Pierre R; Chou, Jeff W; Cooper, Matthew; Corton, J Christopher et al. (BMC Genomics, 2008) Link to Published Version
Stem Cell-Like Gene Expression in Ovarian Cancer Predicts Type II Subtype and Prognosis

Schwede, Matthew; Spentzos, Dimitrios; Bentink, Stefan; Hofmann, Oliver Marc; Haibe-Kains, Benjamin; Harrington, David Paul; Quackenbush, John et al. (PLoS ONE, 2013) Link to Published Version

Now showing items 1-20 of 22

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