A Gene Expression Map for Caenorhabditis elegans

By S. K. Kim, J. Lund, M. Kiraly, K. Duke, M. Jiang, Joshua M. Stuart, A. Eizinger, B. Wylie, G. Davidson. Science, 2001

707 citations recorded by the source corpus.

Subfields: Aging, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/ed9f2ad2828dbd60b1a8e1981147150802696771

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Citations in the corpus

Systematic functional analysis of the Caenorhabditis elegans genome using RNAi (2003, background): “To investigate this possibility, we examined sets or “mounts&rdquo”
An automated method for finding molecular complexes in large protein interaction networks (2003, neutral): “Protein structure [8] and gene expression data [9] is also accumulating at a rapid rate.”
PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans. (2008, methodology): “mountain ( Kim et al., 2001 ) were considered, and median log-fold changes were plotted as in (A) for those mountains changing by R 0.4 log2 units.”
Identification of a novel cis-regulatory element involved in the heat shock response in Caenorhabditis elegans using microarray gene expression and computational methods. (2002, methodology): “With the advent of techniques like SAGE (Velculescu et al. 2000) or DNA microarrays (DeRisi et al. 1997; Kim et al. 2001 ) cohorts of coregulated genes can be easily identified.”
Network visualization and analysis of gene expression data using BioLayout Express3D (2009, methodology): “7) is an application designed for displaying network graphs from biologically derived data and is based on an earlier program, BioLayout Java, written in Java and utilizing Java2D for graphics 17,18 .”
Analyzing time series gene expression data (2004, result): “Similar experiments were carried out in other organisms , including the worm Caenorhabditis elegans (Kim et al., 2001).”
Expression profiling identifies microRNA signature in pancreatic cancer (2006, methodology): “The filtered data were also analyzed using a different clustering technique known as expression terrain maps.(32) The terrain map separated the expression data into 5 main groups of samples (Fig.”
Caenorhabditis elegans: An Emerging Model in Biomedical and Environmental Toxicology (2008, background): “2004, 2008; Zhong and Sternberg, 2006) and along with other genome-level bioinformatics tools (Kim et al., 2001) greatly facilitates system-based analysis.”
Comparative Genomics in Eukaryotes (2005, methodology): “In two eukaryotic organisms, yeast and worm, large-scale mRNA expression measurements had been performed using genome chips (Hughes et al., 2000; Kim et al., 2001).”
Similarities and Differences in Genome-Wide Expression Data of Six Organisms (2003, background): “For example, it was demonstrated that diverse datasets of genome-wide expression profiles can be applied for facilitating functional assignment of uncharacterized ORFs and for identification of cis-regulatory elements (Eisen et al. 1998; Kim et al. 2001; Ihmels et al. 2002).”
Statistical strategies for avoiding false discoveries in metabolomics and related experiments (2007, methodology): “Its application to graph drawing was noted by Kruskal and Seery (1980), and has since been used by many others (e.g., Eades, 1984; Ebbels et al., 2006; Fruchterman and Reingold, 1991; Kim et al., 2001)).”
Integrating 'omic' information: a bridge between genomics and systems biology. (2003, methodology): “A similar compendium was generated for Caenorhabditis elegans by combining data from more than 550 different microarray experiments [ 30 ].”
A census of human transcription factors: function, expression and evolution (2009, background): “This type of localized gene expression control has been reported previousl”