SUPPLEMENTAL MATERIAL FOR
Identification of novel transcripts with differential dorso-ventral expression
in Xenopus gastrula using serial analysis of gene expression
Fernando Faunes, Natalia Sánchez, Javier Castellanos, Ismael Vergara, Francisco Melo and Juan Larraín.
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LARGE DATA FILES NOT AVAILABLE AT THE JOURNAL WEB SITE (GENOME BIOLOGY) |
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WWW LINK |
DESCRIPTION |
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A text file containing a tabulated list of experimental SAGE tags from our experiment, mapped to the genome, along with several calculated information (see Header_Experimental_tags_in_genome.doc for a description of the columns in this table). |
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A text file containing a tabulated list of all potential virtual NlaIII-BsmFI tags in the Xenopus genome, along with several calculated information (see Header_Virtual_tags_in_genome.doc for a description of the columns in this table). |
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A text file in FASTA format containing the 28,657 RNAs from Ensemble. |
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A text file in FASTA format containing the 7,976 RNAs from NCBI. |
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A text file in FASTA format containing the 42,654 EST clusters from Unigene. |
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A text file in FASTA format containing the 41,921 EST clusters from the Gurdon Institute. |
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DATA FILES AVAILABLE AT THE JOURNAL WEB SITE (GENOME BIOLOGY) |
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WWW LINK |
DESCRIPTION |
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This file contains a consolidated and sumarized description of the contents of each additional file listed below. |
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Includes Supplementary Tables 1-4 and their legends. Supplementary Table 1 contains the tags derived from known genes with differential expression along the dorso-ventral axis and their frequency of occurrence in our SAGE libraries. Supplementary Table 2 contains the tag-mapping to transcripts for the 125 tags with significant difference of frequency of occurrence between both libraries. Supplementary Table 3 contains reverse SAGE sequences. Supplementary Table 4 contains the sequences of the primers and information about the probes used in this study. |
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Contains a table with the list of 180 experimental tags with p-values < 0.05 (obtained with the 3 statistical tests), information about known genes and count fold-ratios. |
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Includes Supplementary Figure S1. |
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Contains the complete list of experimental tags with their frequencies of occurrence in the SAGE libraries, normalized count ratio and p-values from three different statistical tests. |
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Contains 15-nts-long experimental tag sequences, their frequencies in the SAGE libraries, count ratios, p-values and their corresponding sequences of 14-nts tags. |
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Contains the list of experimental tags matching to the genome and to the Ensembl transcripts in positions 1, 2 or polyA-next. |
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Contains the list of experimental tags matching to the genome, to the NCBI, Unigenes and Gurdon transcript databases in positions 1, 2 or polyA-next (only those not present in Ensembl). |
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Contains the list of experimental tags matching to the genome but without reliable matches to the transcript databases. |
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Contains the list of experimental tags matching to the genome but without any match to the transcript databases. |
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Contains the list of experimental tags matching to the genome and their frequencies of occurrence in the transcript databases used in this study. |
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Tag-mapping of experimental tags to the Ensembl transcript database. |
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Tag-mapping of experimental tags to the NCBI transcript database. |
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Tag-mapping of experimental tags to the Unigene transcript database. |
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Tag-mapping of experimental tags to the Gurdon transcript database. |
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