| First Author | Mouse Genome Informatics Scientific Curators | Year | 2002 |
| Mgi Jnum | J:80155 | Mgi Id | MGI:2429926 |
| Citation | Mouse Genome Informatics Scientific Curators (2002) Mouse Genome Informatics Computational Sequence to Gene Associations for FANTOM2 data. |
| abstractText | Some DNA sequence-to-gene associations in MGI that involve sequence data from the FANTOM2 dataset (see J:80000) were established using semi-automated computational methods. Automated sequence to gene associations were based on the quality of the sequence similarity match between the query sequence, which characterized a transcript-based gene in MGI, and a target FANTOM2 sequence. Automated associations required a match of at least 95% identity over greater than 95% of the length of the query sequence. For matches between MGI transcript-based genes and FANTOM2-new sequences not associated with MGI genes prior to the FANTOM2 load, the FANTOM2 sequences were associated with the existing MGI gene record, often accompanied by nomenclature updates to comply with established MGI nomenclature policy. Some matches were to FANTOM1 sequences, which were associated to MGI gene records previously (see J:65060), or to FANTOM2-new sequences contained in FANTOM2 cDNA clusters which incorporate at least one FANTOM1 sequence. In such cases, MGI gene objects existed for these target FANTOM2 sequences predating the load of FANTOM2 data into MGI. For such cases, automated gene object consolidation was driven by these sequence similarity and cluster associations, where no conflicts were observed in chromosome mapping or other associated data between the merged gene objects. Conflicts were resolved manually by MGI curators. For more detailed information, please contact MGI at mgi-help@jax.org. |
