Analysis of tag-position bias in MPSS technology.

ABSTRACT:

Background

Massively Parallel Signature Sequencing (MPSS) technology was recently developed as a high-throughput technology for measuring the concentration of mRNA transcripts in a sample. It has previously been observed that the position of the signature tag in a transcript (distance from 3' end) can affect the measurement, but this effect has not been studied in detail.

Results

We quantify the effect of tag-position bias in Classic and Signature MPSS technology using published data from Arabidopsis, rice and human. We investigate the relationship between measured concentration and tag-position using nonlinear regression methods. The observed relationship is shown to be broadly consistent across different data sets. We find that there exist different and significant biases

SUBMITTER: Chen J 

PROVIDER: S-EPMC1533822 | biostudies-literature | 2006 Apr

REPOSITORIES: biostudies-literature