"We read and systematically coded nearly 6,000 articles, generated more than 2,000 pages of interview transcripts, and created 384 million bytes of computer data".
A graduate student coded all transcripts and created a memo summarizing salient reflections of each transcript.
One researcher (MP) worked systematically through all transcripts and created charts to summarise issues that related to participants' presentation behaviours, experiences and pathways to detection.
First, the lead author read all transcripts and created a preliminary coding scheme based on emerging themes and the interview questions [ 49].
Thereafter, a process of reduction was used to take the full transcripts and create concise summaries of the statements (paraphrasing).
For example, the presence of an enterobacterial repetitive intergenic consensus (ERIC) sequence downstream of a gene may induce a conformational change in RNA transcripts and create a cleavage site for RNase E. This then can activate degradation of upstream mRNAs by 3′ to 5′ exoribonucleases (De Gregorio et al. 2005).
The study found that ITR added little to the accuracy of the transcript and may create complications if the goal of the researcher is to produce a transcript which reflects precisely what was said at the time of the interview.
When this system is programed with a truncated mRNA that lacks a stop codon, the ribosome translates to the end of the transcript and stalls, creating a synchronized population of ribosome nascent chain complexes (RNCs) of defined length that functionally engage the targeting and translocation machinery (Gilmore et al., 1991).
Individual researchers examined the transcripts and collated comments iteratively, and created an initial coding structure.
To decrease the number of spurious alignments in the dataset of A5Es and A3Es, we used the original ESTs and created new transcript-to-genomic alignments, by utilizing two different algorithms: 1) BLAT [ 76], as stored in the UCSC database (see Availability and requirements section for URL); and 2) EXALIN [ 75], with the parameter set (m, n, q, r, x) = (25, 25, -25, -25, and -25).
