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2012

Wishart, David S., Cruz, Joseph, Tang, Peter, Stothard, Paul, Zhou, Jianjun, Berjanskii, Mark, Liang, Yongjie, Lu, Paul, Zhou, You, Lin, Gouhui, MacDonell, Cam

Originally released in 2005, BacMap is an electronic, interactive atlas of fully sequenced bacterial genomes. It contains fully labeled, zoomable and searchable chromosome maps for essentially all sequenced prokaryotic (archaebacterial and eubacterial) species. Each map can be zoomed to the level...

2005

Dong, Xaoli, Wishart, David S., Stothard, Paul, Greiner, Russ, Guo, AnChi, van Domselaar, Gary H., Szafron, Duane, Shrivastava, Savita, Cruz, Joseph A., Lu, Paul

BASys (Bacterial Annotation System) is a web server that supports automated, in-depth annotation of bacterial genomic (chromosomal and plasmid) sequences. It accepts raw DNA sequence data and an optional list of gene identification information and provides extensive textual annotation and...

2012

Dobrinsky, John, Zhou, Chi, Pasternak, J. Alexander, Dyck, Michael K., Foxcroft, George R., Nieminen, Julie, Tsoi, Stephen, Rigault, Philippe, Sirard, Marc-André, Robert, Claude, Grant, Jason R.

Background The domestic pig is an important livestock species and there is strong interest in the factors that affect the development of viable embryos and offspring in this species. A limited understanding of the molecular mechanisms involved in early embryonic development has inhibited our...

2016

Godbout, Roseline, Brindley, David N., McMullen, Todd, Mackey, John R., Benesch, Matthew, Mi, Si, Venkatraman, Ganesh, Liu, Rong-Zong, Curtis, Jonathan M., Tang, Xiaoyun, Bekele, Raie T.

Tamoxifen is the accepted therapy for patients with estrogen receptor-α (ERα)-positive breast cancer. However, clinical resistance to tamoxifen, as demonstrated by recurrence or progression on therapy, is frequent and precedes death from metastases. To improve breast cancer treatment it is vital...

2015

Wlodarska, Marta, Bravo, David M., Finlay, B.B., Willling, Benjamin P.

Plant extracts, or phytonutrients, are used in traditional medicine practices as supplements to enhance the immune system and gain resistance to various infectious diseases and are used in animal production as health promoting feed additives. To date, there are no studies that have assessed their...

2015

Malecki, Irek A., Martin, Graeme B., Cozens, Greg, Hawken, Penelope A.R., Liang, Guanxiang, Guan, Yongjuan, Vercoe, Philip E., Guan, Le Luo

We tested whether reductions in spermatozoal quality induced by under-nutrition are associated with increased germ cell apoptosis and disrupted spermatogenesis, and whether these effects are mediated by small RNAs. Groups of 8 male sheep were fed for a 10% increase or 10% decrease in body mass...

2016

Liu, Jian-Feng, Fan, Ziyao, Li, Junhui, Wang, Jiafu, Wang, Zhiquan, Zhao, Pengju, Kang, Huimin, Zhang, Qin, Yin, Zongjun, Wang, Haifei

In this study, we performed a genome-wide SV detection among the genomes of thirteen pigs from diverse Chinese and European originated breeds by next genetation sequencing, and constrcuted a single-nucleotide resolution map involving 56,930 putative SVs. We firstly identified a SV hotspot...

2011

Liao, Xiaoping, Choi, Jung-Woo, Stothard, Paul, Basu, Urmila, Sumner-Thomson, Jennifer M., Meng, Yan, Moore, Stephen S.

Background One of the goals of livestock genomics research is to identify the genetic differences responsible for variation in phenotypic traits, particularly those of economic importance. Characterizing the genetic variation in livestock species is an important step towards linking genes or...

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...