Sentence examples for using the mapping file from inspiring English sources

We adopted Mapman annotation for the SP114 embryo transcriptome using the mapping file Zm_Genome_Release_09 [ 24, 25] to assign genes to 35 functional categories (Additional file 3: Table S2).

For this latter step probe sets were mapped to ENSEMBL genes using the mapping file (HuEx-1_0-st-v2, U-Ensembl49, G-Affy.cdf) generated by the aroma.affymetrix team [ 49].

Mapping rates of the assemblies were computed by SAMtools version 0.1.19 [ 42] using the mapping files that were made for counting mapped reads to the contigs in the previous subsection.

Mouse and rat genes were mapped to their human orthologs using the mapping files provided by MGD (ftp://ftp.informatics.jax.org/pub/reports/HOM_MouseHumanSequence.rpt) and RGD (ftp://rgd.mcw.edu/pub/data_release/RGD_ORTHOLOGS.txt), respectively.

In order to use the mapping file provided by the MapMan homepage (Zm_GENOME_RELEASE_09, http://mapman.gabipd.org), gene identifiers were converted into transcript identifiers by adding the extension "_T01".

This tells MEGAN4 to use the mapping file to assign the accession number of a hit in the BLAST output file to a taxa, before trying to make taxon names.

For tracking down the experimental conditions of the different arrays we used the mapping file provided and with assistance from the curators of TAIR the codes were converted into matching experimental conditions that can be found on the website.

We wrote R-scripts [ 34] for the coverage analyses and plots, using the mapping statistics files and the base-wise coverage files generated by Corona Lite and Bioscope.

Corresponding UniProt Accession Name (Uniprot_AC) was obtained for each mapped Entrez Gene ID between the species using the ID mapping file for each organism from 1.

The Cufflinks program [41] was used define transcribed regions using the SAM mapping file as the input.

In summary, 154 component foods were direct matches based on the food names; 122 component foods were close but differed in either unspecified details (e.g., "summer squash" and "squash") or preparation (e.g., "raw onion" and "cooked onion"); 26 component foods were matched using the TDS mapping file (e.g., "lentils" and "white beans").