Exact(8)
This filter cannot be used in datasets derived from Sanger-sequencing, due to their relatively small size, or in non-selected CX7C library datasets, where only singletons are expected.
Because our experiment was designed to split the 32 strains into 10 different tagged libraries (each containing 3 4 strains), it is possible to analyze the average true target gene discovery yield over all possible combinations of these 10 libraries, using the 10 separate tagged library datasets of reads.
YH performed microarray hybridization, analyzed part of microarray and cDNA library datasets.
Trinity was implemented with default parameters on our 8 library datasets.
We assessed several quality parameters in all four sequencing library datasets (Additional file 1: Table S2) and found no notable change with DSN treatment.
SAGE tags and their normalized frequencies were imported into GeneSpring 7.2 (Agilent Technologies Inc., Palo Alto, CA) used for additional analyses including the generation of standard correlations between SAGE library datasets.
Similar(52)
Moreover, BLAST analysis of the assembled sequences revealed Lyngbya as the only 16S rRNA gene sequence present in the in silico contig library (Dataset S1).
Supplementary information contains normalized ratios (Dataset S2), z-scores relative to the unselected library (Dataset S3), z-scores relative to the enrichments performed in the media without antibiotics (Dataset S4), combined z-scores (Dataset S5), and the combined z-scores considered significant (Dataset S1).
The most abundant group in the combined library dataset comprises 209 ESTs within 71 contigs.
The complete ten species EST library dataset will be published elsewhere.
The library dataset included 236,942 unique sequences, showing overlapping as well as clear differently expressed sequence tags (ESTs).
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