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Characterization of the altered gene expression profile in early porcine embryos generated from parthenogenesis and somatic cell chromatin transfer
Download2014
Dobrinsky, John, Zhou, Chi, Dixon, Walter T., Dyck, Michael K., Stothard, Paul, Foxcroft, George R., Tsoi, Stephen, Verstegen, John
The in vitro production of early porcine embryos is of particular scientific and economic interest. In general, embryos produced from in vitro Assisted Reproductive Technologies (ART) manipulations, such as somatic cell chromatin transfer (CT) and parthenogenetic activation (PA), are less...
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Differences in whole blood gene expression associated with infection time-course and extent of fetal mortality in a reproductive model of type 2 porcine reproductive and respiratory syndrome virus (PRRSV) infection
Download2016
Ladinig, Andrea, Stothard, Paul, Wilkinson, Jamie M., Kommadath, Arun, Plastow, Graham S., Harding, John C. S., Bao, Hua, Lunney, Joan K.
Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) infection of pregnant females causes fetal death and increased piglet mortality, but there is substantial variation in the extent of reproductive pathology between individual dams. This study used RNA-sequencing to characterize the whole...
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2012
Wang, Lusheng, Moore, Steve S., Cai, Zhipeng, Goebel, Randy, Lin, Guohui, Wang, Yining, Stothard, Paul
Background Single nucleotide polymorphism (SNP) genotyping assays normally give rise to certain percents of no-calls; the problem becomes severe when the target organisms, such as cattle, do not have a high resolution genomic sequence. Missing SNP genotypes, when related to target traits, would...
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Potential regulatory role of microRNAs in the development of bovine gastrointestinal tract during early life
Download2014
Liang, Guanxiang, Bao, Hua, Guan, Leluo, Griebel, Philip J., Stothard, Paul, McFadden, Thomas B., Malmuthuge, Nilusha
This study aimed to investigate the potential regulatory role of miRNAs in the development of gastrointestinal tract (GIT) during the early life of dairy calves. Rumen and small intestinal (mid-jejunum and ileum) tissue samples were collected from newborn (30 min after birth; n = 3), 7-day-old...
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2015
Stothard, Paul, Wang, Yining, Lin, Guohui, Wylie, Tim
Background Despite ongoing reductions in the cost of sequencing technologies, whole genome SNP genotype imputation is often used as an alternative for obtaining abundant SNP genotypes for genome wide association studies. Several existing genotype imputation methods can be efficient for this...
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Whole-genome analyses of Korean native and Holstein cattle breeds by massively parallel sequencing
Download2014
Kim, Tae-Hun, Oh, Jae-Don, Han, Kwang-Jin, Choi, Jung-Woo, Choi, So-Young, Lee, Hak-Kyo, Stothard, Paul, Jeon, Heoyn-Jeong, Lee, Kyung-Tai, Lee, Jeong-Koo, Jeong, Dongkee, Kim, Namshin, Chung, Won-Hyong, Kim, Hyeong-Cheol, Liao, Xiaoping, Yang, Bokyoung, Miller, Stephen P., Lee, Sung-Jin
A main goal of cattle genomics is to identify DNA differences that account for variations in economically important traits. In this study, we performed whole-genome analyses of three important cattle breeds in Korea—Hanwoo, Jeju Heugu, and Korean Holstein—using the Illumina HiSeq 2000 sequencing...