Sentence examples for mouse contamination in from inspiring English sources
This qPCR method allows for quick and accurate estimations of mouse contamination in human xenografts.
Our study systematically analyzes the effects of mouse contamination in the sequencing data of human-in-mouse xenografts.
The average percentage of mouse contamination in the tumor xenografts varies widely from 0% (undetectable under current assay conditions) to 87% in MDA-MB-361.
Finally, one may be unaware of the presence of mouse contamination in the sample and thus does not consider any special handling of the sequencing reads.
Important factors that may contribute to the amount of mouse contamination in a xenograft may include the histological type of tumor, how many times it was serially passaged in vivo and how vascularized the xenograft normally becomes.
The values from TaqMan® qPCR analysis were used to calculate the relative absolute quantity between human and mouse probes, which demonstrated a 27% mouse contamination in the pancreatic xenograft compared with the tumor cell line derived from the same tumor.
Mouse contamination varied in these from 45%-66%, even though all were derived from the same cell culture sample.
We estimated the mouse contamination level in C15 to be 29.6%, based on the number of human and mouse leptin present as determined by real time PCR using a standard curve.
Low mouse contamination percentages were found in all in vivo passages, from P1 to P10, and high mouse contamination was found in some P1 passage xenografts, suggesting the length of time spent in vivo is not a significant factor in predicting which xenografts will contain the highest amount of contaminating mouse cells.
"Everyone who works with mice has mouse retrovirus contamination in their lab," says Coffin.
In addition to modeling for basic coverage and MAF, we also model for aneuploidy, normal/diploid contamination of primary tumor samples, mouse contamination of human tumors grown in xenograft and we perform auto-correction of systematic sequencing biases using matched normal/control samples.
