Open Access Highly Accessed Research article

Characterisation of the transcriptome of a wild great tit Parus major population by next generation sequencing

Anna W Santure1*, Jake Gratten1, Jim A Mossman1, Ben C Sheldon2 and Jon Slate1

Author Affiliations

1 Department of Animal and Plant Sciences, University of Sheffield, Sheffield, S10 2TN, UK

2 Edward Grey Institute, Department of Zoology, University of Oxford, Oxford, OX1 3PS, UK

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BMC Genomics 2011, 12:283  doi:10.1186/1471-2164-12-283

Published: 2 June 2011

Additional files

Additional file 1:

Table S1. Contigs with high coverage aligning with zebra finch or chicken genes. an excel table listing great tit contigs with high sequencing coverage which align with zebra finch and/or chicken genes. Table S2. Unique GO terms associated with contigs expressed in only one tissue. an excel table listing the unique GO terms associated with contigs expressed only in one tissue. Table S3. Classification of unique GO terms into children of the three namespaces. an excel table listing the classification of all the GO terms uniquely associated with contigs expressed in one (or all) tissues into the 65 GO terms which are 'children' of the three namespaces (molecular function, biological process and cellular component). Table S4. Microsatellites detected in the great tit transcriptome. an excel table listing repeats detected in the great tit assembly. Repeats are listed along with at least 10 bases of flanking sequence on each side (up to a maximum of 200 bases of flanking sequence)

Format: XLS Size: 4.6MB Download file

This file can be viewed with: Microsoft Excel Viewer

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Additional file 2:

Figure S1. Distribution of zebra finch genes across the zebra finch genome. Counts are plotted within 500,000 base pair bins. No genes map to Tgu16 and one gene maps to TguLG5 (not shown). Note that Tgu-22, 25, 26 and 27 are presented out of numeric sequence at the bottom of the plot, to make visual comparison with Figures 3 and 4 easier. an encapsulated postscript (eps) file showing the distribution of zebra finch genes across the zebra finch genome

Format: EPS Size: 86KB Download file

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Additional file 3:

Figure S2. Example 'is_a' and 'part_of' pedigree mapping of the GO term GO:0022857 (name: transmembrane transporter activity). The 'is_a'-only mapping is shown light grey; GO:0022857 is a subtype of GO:0005215 (transporter activity), which is a subtype of the root term GO:0003674 (molecular function), while GO:0022857 can also be mapped to the root term GO:0008150 (biological process) through 'part_of' relationships. a powerpoint (ppt) file with an example pedigree mapping of the GO term GO:0022857 to its 'parent' terms through "is_a" and "part_of" relationships

Format: PPT Size: 147KB Download file

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Open Data