Sentence examples for as compared to the reference transcriptome from inspiring English sources

Human monocyte-derived Mφs and DCs were infected by M. tuberculosis for 4, 18 or 48 hours, and cellular transcriptomes were analyzed as compared to the reference transcriptome at the time of infection (time-point 0).

The total number of unambiguously mapped reads (i.e., "unique genes") of each treatment compared to the "reference" transcriptome was exported as a table to use as count data in further analyses.

Interestingly, among the down-regulated unigenes the term "response to stress" (GO 0006950) figures among the over represented terms suggesting that genes related to stress are not only down-regulated in GR4-AS compared to the parental but also represent a higher percentage of total GO terms down regulated compared to the reference transcriptome (Additional file 10: Table S5).

However, where gene duplication has generated novel sequences compared to the reference transcriptome, these sequences can remain undiscovered or even be assembled as a chimeric sequence with their paralogues.

Bovine monocyte-derived macrophages were infected with either a virulent (Argentinean wild boar 04 303) or an attenuated M. bovis strain (Argentinean bovine 04 534) for 4 hours, and cellular transcriptomes were analyzed and compared to the reference transcriptome of uninfected cells.

The results show that a) no genes are universally stable, b) most commonly used reference genes yield very high transcript abundances as compared to the entire transcriptome, and c) for each biological context a subset of stable genes exists that has smaller variance than commonly used reference genes or genes that were selected for their stability across all conditions.

Gene ontology analysis showed a pattern of higher expression in the female as compared to the male transcriptome.

A critical and unique feature of our method is that rather than comparing a tumour transcriptome to the reference genome we compare it to the reference transcriptome.

The bacterial RNA samples purified from 8 eschars derived from 7 individual patients (Table 1) were subjected to whole-genome-wide transcript expression profile analysis and compared to the transcriptome of R. conorii grown in vitro and used as reference.

The transcriptome of the mutant nodules was compared to a reference transcriptome characteristic of wild type symbiosis.

JAFFA compares a cancer transcriptome to the reference transcriptome, rather than the genome, where the cancer transcriptome is inferred using long reads directly or by de novo assembling short reads.