Open Access Research

The embryonic muscle transcriptome of Caenorhabditis elegans

Rebecca M Fox14, Joseph D Watson12, Stephen E Von Stetina1, Joan McDermott3, Thomas M Brodigan3, Tetsunari Fukushige3, Michael Krause3 and David M Miller12*

Author Affiliations

1 Department of Cell and Developmental Biology, Vanderbilt University, 465 21st Ave. S., Nashville, TN 37232-8240, USA

2 Graduate Program in Neuroscience, Center for Molecular Neuroscience, Vanderbilt University, Nashville, TN 37232-8548, USA

3 Laboratory of Molecular Biology, National Institute of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Building 5, Room B1-04, Bethesda, MD 20892, USA

4 Current address: Department of Cell Biology, Johns Hopkins University School of Medicine, 725 N. Wolfe St., Baltimore, MD 21205, USA

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Genome Biology 2007, 8:R188  doi:10.1186/gb-2007-8-9-r188

Published: 12 September 2007

Additional files

Additional data file 1:

Provided is the complete list of RMA normalized intensity values from 0 hour (M0) and 24 hour (M24) datasets.

Format: XLS Size: 8.5MB Download file

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Additional data file 2:

All expressed gene lists are provided.

Format: XLS Size: 9.8MB Download file

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Additional data file 3:

Provided are comparisons of expressed gene lists (total reference expressed genes [R0 + R24] versus total muscle expressed genes [M0 + M24]; M0 versus M24; total unique genes).

Format: XLS Size: 7.4MB Download file

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Additional data file 4:

Summarized are M0 and M24 enriched genes, plus the total unique genes from both lists (total muscle), and comparisons of these lists are provided.

Format: XLS Size: 2.3MB Download file

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Additional data file 5:

Genes depleted in M0 and M24 are summarized, and a comparison of those lists is provided.

Format: XLS Size: 4.7MB Download file

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Additional data file 6:

Provided is a master annotation file of all probe sets represented on the C. elegans Affymetrix microarray, based on WormBase Release WS170. Annotation of known muscle expressed genes is included.

Format: XLS Size: 7.4MB Download file

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Additional data file 7:

Provided is a master annotation file of all genes represented on the C. elegans Affymetrix microarray, based on WormBase Release WS170. Annotation of known muscle expressed genes is included.

Format: XLS Size: 7.3MB Download file

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Additional data file 8:

Provided are comparisons with other datasets (germline enriched or mRNA tagging isolated intestine enriched [GI] versus total muscle, L1 mRNA-tagging isolated muscle transcripts versus total muscle). Reannotated mRNA-tagging data for genes represented on the C. elegans Affymetrix microarray are provided. Also included are embryonic pan-neural (EP), embryonic A-class (EA), and GI datasets.

Format: XLS Size: 5.7MB Download file

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Additional data file 9:

Provided is a comparison of total muscle enriched genes versus embryonic A-class (EA) and total muscle enriched genes versus embryonic pan-neural (EP)

Format: XLS Size: 2.4MB Download file

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Additional data file 10:

Presented is a comparison of the total muscle dataset with HLH-1 induced transcripts.

Format: XLS Size: 3.6MB Download file

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Additional data file 11:

Provided is the full list of GFP reporters generated. Summarized expression patterns and primer sets used to generate each promoter::GFP are included.

Format: XLS Size: 132KB Download file

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Additional data file 12:

Presented is a table of muscle structural genes.

Format: XLS Size: 26KB Download file

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Additional data file 13:

Summarized are the total muscle genes with human homologs.

Format: XLS Size: 1.3MB Download file

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