Sentence examples for transcript methods from inspiring English sources

To annotate the potential domains inside the reconstructed sequences, the open reading frame (ORF) was predicted for each transcript (Methods), and then all transcripts with predicted ORF were used to search against the Pfam database based on profile hidden Markov model methods.

At least eight proteins, out of a total of thirty-eight deduced using the SAGE assigned transcript method and expressed at over 0.15%, were identified by proteome analysis.

The same six RNA samples used for RNA-Seq were prepared and hybridized to microarrays that have one probe designed to target each of the RefSeq transcripts (Methods).

We have previously reported this approach [ 17] with the difference that here we used bins of varying sizes for more accurate detection of different types of transcripts (Methods).

Further, for both microarrays and RNA-Seq, we used random primers for the first-strand cDNA synthesis, thus ensuring approximately uniform coverage along the transcripts (Methods).

Specimens acquired from an independent clinical laboratory and previously characterized with independent singleplex LDTs for ABL1 and the major (b2a2/b3a2) or minor (e1a2) BCR–ABL1 fusion transcripts (method 2, n=82) were tested at Asuragen Inc. (Austin, TX, USA) on a 7500 Fast Dx Real-Time PCR System (Applied Biosystems).

Given the known complexity and extensive alternative splicing of the TP63 gene we analyzed all RNA-Seq datasets using two pipelines, implementing different transcript reconstruction methods and annotation files (see Methods).

For a pure lymphocyte population, only one in approximately 2000 transcripts are TCR transcripts (see " Methods") and in tissues T cells represent a minor cell type, further decreasing TCR transcript representation.

From this male accessory gland EST contig, we developed primers to amplify the entire coding region of this transcript (see Methods below).

We developed ejac-sp specific primers to amplify a 99 bp region that is 5' to the conserved IVGG site (Fig. 3) and unique to this transcript (see Methods below).

We identified all expression values that were more than 3.4644 standard deviations from the mean expression value for that particular transcript (see methods for an explanation for choosing this threshold).