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The RNASeq Genome Annotation Assessment Project

The RNASeq Genome Annotation Assessment Project. Data Coordination Felix Kokocinski, WTSI. RGASP Submission Stats. Thanks. Issues Testing & annotating input (RNASeq) data Set up of data handling and analysis pipeline Filtering/Qcing pre-submission, choose best (few) methods

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The RNASeq Genome Annotation Assessment Project

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  1. The RNASeq GenomeAnnotation Assessment Project Data Coordination Felix Kokocinski, WTSI

  2. RGASP Submission Stats • Thanks • Issues • Testing & annotating input (RNASeq) data • Set up of data handling and analysis pipeline • Filtering/Qcing pre-submission, choose best (few) methods • Standard GTF format (exon-transcript-gene relations) • Analysis • First round results • Categorization, alternative approaches to follow • Open to everyone?

  3. RGASP Submission Stats • Submitting groups: • Human: 12 • Worm: 9 • Fly: 7 • Total submissions: ~ 300

  4. RGASP Submission Stats

  5. RGASP Submission Stats Median File size: Human 42,822 kb Worm 37,737 kb Fly 15,551 kb

  6. RGASP Submission Stats Comparing genomic coverage of “exon” features. GENCODE exons = 6,633,467 bp. GENCODE CDS = 2,047,429 bp.

  7. Quantification Spike in Sequences (Human Solexa Data)

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