Search Results - "Steinig, Eike"

netview p: a network visualization tool to unravel complex population structure using genome-wide SNPs by Steinig, Eike J., Neuditschko, Markus, Khatkar, Mehar S., Raadsma, Herman W., Zenger, Kyall R.

“…Network‐based approaches are emerging as valuable tools for the analysis of complex genetic structure in wild and captive populations. netview p combines data…”
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Evolution and Global Transmission of a Multidrug-Resistant, Community-Associated Methicillin-Resistant Staphylococcus aureus Lineage from the Indian Subcontinent by Steinig, Eike J, Duchene, Sebastian, Robinson, D Ashley, Monecke, Stefan, Yokoyama, Maho, Laabei, Maisem, Slickers, Peter, Andersson, Patiyan, Williamson, Deborah, Kearns, Angela, Goering, Richard V, Dickson, Elizabeth, Ehricht, Ralf, Ip, Margaret, O'Sullivan, Matthew V N, Coombs, Geoffrey W, Petersen, Andreas, Brennan, Grainne, Shore, Anna C, Coleman, David C, Pantosti, Annalisa, de Lencastre, Herminia, Westh, Henrik, Kobayashi, Nobumichi, Heffernan, Helen, Strommenger, Birgit, Layer, Franziska, Weber, Stefan, Aamot, Hege Vangstein, Skakni, Leila, Peacock, Sharon J, Sarovich, Derek, Harris, Simon, Parkhill, Julian, Massey, Ruth C, Holden, Mathew T G, Bentley, Stephen D, Tong, Steven Y C

“…The evolution and global transmission of antimicrobial resistance have been well documented for Gram-negative bacteria and health care-associated epidemic…”
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Benchmarking reveals superiority of deep learning variant callers on bacterial nanopore sequence data by Hall, Michael B, Wick, Ryan R, Judd, Louise M, Nguyen, An N, Steinig, Eike J, Xie, Ouli, Davies, Mark, Seemann, Torsten, Stinear, Timothy P, Coin, Lachlan

“…Variant calling is fundamental in bacterial genomics, underpinning the identification of disease transmission clusters, the construction of phylogenetic trees,…”
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Development and validation of a RAD-Seq target-capture based genotyping assay for routine application in advanced black tiger shrimp (Penaeus monodon) breeding programs by Guppy, Jarrod L, Jones, David B, Kjeldsen, Shannon R, Le Port, Agnes, Khatkar, Mehar S, Wade, Nicholas M, Sellars, Melony J, Steinig, Eike J, Raadsma, Herman W, Jerry, Dean R, Zenger, Kyall R

“…The development of genome-wide genotyping resources has provided terrestrial livestock and crop industries with the unique ability to accurately assess genomic…”
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Identification of key contributors in complex population structures by Neuditschko, Markus, Raadsma, Herman W, Khatkar, Mehar S, Jonas, Elisabeth, Steinig, Eike J, Flury, Christine, Signer-Hasler, Heidi, Frischknecht, Mirjam, von Niederhäusern, Ruedi, Leeb, Tosso, Rieder, Stefan

“…Evaluating the genetic contribution of individuals to population structure is essential to select informative individuals for genome sequencing, genotype…”
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Neuro-Ophthalmic Dengue Infection: A Case Report with a Multiple Body Site Sampling Strategy and Review of Laboratory Data by Butel-Simoes, Grace I, Bajaj, Nupur, Asad, Sultan, Moselen, Jean, Orlando, Nicole, Steinig, Eike, Tran, Thomas, Druce, Julian, Caly, Leon, Bishop, Emma, Harangozo, Chanad, Lim, Chuan Kok

“…Dengue neurological disease is an uncommon yet severe complication of dengue infection. It can manifest as encephalitis, encephalopathy, neuro-ophthalmic…”
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Taking the next-gen step: Comprehensive antimicrobial resistance detection from Burkholderia pseudomallei by Madden, Danielle E., Webb, Jessica R., Steinig, Eike J., Currie, Bart J., Price, Erin P., Sarovich, Derek S.

“…Antimicrobial resistance (AMR) poses a major threat to human health. Whole-genome sequencing holds great potential for AMR identification; however, there…”
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Effects of growth phase and nitrogen starvation on expression of fatty acid desaturases and fatty acid composition of Isochrysis aff. galbana (TISO) by Huerlimann, Roger, Steinig, Eike J., Loxton, Heather, Zenger, Kyall R., Jerry, Dean R., Heimann, Kirsten

“…Very long-chain polyunsaturated fatty acids (VLC-PUFAs) are important dietary requirements for maintaining human health. Many marine microalgae are naturally…”
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The effect of nitrogen limitation on acetyl-CoA carboxylase expression and fatty acid content in Chromera velia and Isochrysis aff. galbana (TISO) by Huerlimann, Roger, Steinig, Eike J., Loxton, Heather, Zenger, Kyall R., Jerry, Dean R., Heimann, Kirsten

“…Lipids from microalgae have become a valuable product with applications ranging from biofuels to human nutrition. While changes in fatty acid (FA) content and…”
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Global Scale Dissemination of ST93: A Divergent Staphylococcus aureus Epidemic Lineage That Has Recently Emerged From Remote Northern Australia by van Hal, Sebastiaan J, Steinig, Eike J, Andersson, Patiyan, Holden, Matthew T G, Harris, Simon R, Nimmo, Graeme R, Williamson, Deborah A, Heffernan, Helen, Ritchie, S R, Kearns, Angela M, Ellington, Matthew J, Dickson, Elizabeth, de Lencastre, Herminia, Coombs, Geoffrey W, Bentley, Stephen D, Parkhill, Julian, Holt, Deborah C, Giffard, Phillip M, Tong, Steven Y C

“…In Australia, community-associated methicillin-resistant (MRSA) lineage sequence type (ST) 93 has rapidly risen to dominance since being described in the early…”
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Exploring the evolution and epidemiology of European CC1-MRSA-IV: tracking a multidrug-resistant community-associated meticillin-resistant Staphylococcus aureus clone by Earls, Megan R, Steinig, Eike J, Monecke, Stefan, Samaniego Castruita, José A, Simbeck, Alexandra, Schneider-Brachert, Wulf, Vremerǎ, Teodora, Dorneanu, Olivia S, Loncaric, Igor, Bes, Michèle, Lacoma, Alicia, Prat Aymerich, Cristina, Wernery, Ulrich, Armengol-Porta, Marc, Blomfeldt, Anita, Duchene, Sebastian, Bartels, Mette D, Ehricht, Ralf, Coleman, David C

“…This study investigated the evolution and epidemiology of the community-associated and multidrug-resistant clone European CC1-MRSA-IV. Whole-genome sequences…”
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Single-molecule sequencing reveals the molecular basis of multidrug-resistance in ST772 methicillin-resistant Staphylococcus aureus by Steinig, Eike J, Andersson, Patiyan, Harris, Simon R, Sarovich, Derek S, Manoharan, Anand, Coupland, Paul, Holden, Matthew T G, Parkhill, Julian, Bentley, Stephen D, Robinson, D Ashley, Tong, Steven Y C

“…Methicillin-resistant Staphylococcus aureus (MRSA) is a major cause of hospital-associated infection, but there is growing awareness of the emergence of…”
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Uncovering strain- and age-dependent innate immune responses to SARS-CoV-2 infection in air-liquid-interface cultured nasal epithelia by Chang, Jessie J.-Y., Grimley, Samantha L., Tran, Bang M., Deliyannis, Georgia, Tumpach, Carolin, Nguyen, An N.T., Steinig, Eike, Zhang, JianShu, Schröder, Jan, Caly, Leon, McAuley, Julie, Wong, Sharon L., Waters, Shafagh A., Stinear, Timothy P., Pitt, Miranda E., Purcell, Damian, Vincan, Elizabeth, Coin, Lachlan J.M.

“…Continuous assessment of the impact of SARS-CoV-2 on the host at the cell-type level is crucial for understanding key mechanisms involved in host defense…”
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Emergence and clonal expansion of a qacA-harbouring sequence type 45 lineage of methicillin-resistant Staphylococcus aureus by Nong, Yi, Steinig, Eike, Pollock, Georgina L., Taiaroa, George, Carter, Glen P., Monk, Ian R., Pang, Stanley, Daley, Denise A., Coombs, Geoffrey W., Forde, Brian M., Harris, Patrick N. A., Sherry, Norelle L., Howden, Benjamin P., Pasricha, Shivani, Baines, Sarah L., Williamson, Deborah A.

“…The past decade has seen an increase in the prevalence of sequence type (ST) 45 methicillin-resistant Staphylococcus aureus (MRSA), yet the underlying drivers…”
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Nanoq: ultra-fast quality control for nanopore reads by Steinig, Eike, Coin, Lachlan

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Mpox diagnostics: Review of current and emerging technologies by Lim, Chuan Kok, Roberts, Jason, Moso, Michael, Liew, Kwee Chin, Taouk, Mona L., Williams, Eloise, Tran, Thomas, Steinig, Eike, Caly, Leon, Williamson, Deborah Ann

“…Mpox is a zoonotic disease caused by monkeypox virus (MPXV) from the Orthopoxvirus genus. Unprecedented transmission events have led to more than 70 000 cases…”
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Benchmarking reveals superiority of deep learning variant callers on bacterial nanopore sequence data by Hall, Michael B, Wick, Ryan R, Judd, Louise M, Nguyen, An N, Steinig, Eike J, Xie, Ouli, Davies, Mark, Seemann, Torsten, Stinear, Timothy P, Coin, Lachlan

“…Variant calling is fundamental in bacterial genomics, underpinning the identification of disease transmission clusters, the construction of phylogenetic trees,…”
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Phylodynamic Inference of Bacterial Outbreak Parameters Using Nanopore Sequencing by Steinig, Eike, Duchêne, Sebastián, Aglua, Izzard, Greenhill, Andrew, Ford, Rebecca, Yoannes, Mition, Jaworski, Jan, Drekore, Jimmy, Urakoko, Bohu, Poka, Harry, Wurr, Clive, Ebos, Eri, Nangen, David, Manning, Laurens, Laman, Moses, Firth, Cadhla, Smith, Simon, Pomat, William, Tong, Steven Y C, Coin, Lachlan, McBryde, Emma, Horwood, Paul

“…Abstract Nanopore sequencing and phylodynamic modeling have been used to reconstruct the transmission dynamics of viral epidemics, but their application to…”
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Phylodynamic signatures in the emergence of community-associated MRSA by Steinig, Eike, Aglua, Izzard, Duchene, Sebastian, Meehan, Michael T, Yoannes, Mition, Firth, Cadhla, Jaworski, Jan, Drekore, Jimmy, Urakoko, Bohu, Poka, Harry, Wurr, Clive, Ebos, Eri, Nangen, David, Müller, Elke, Mulvey, Peter, Jackson, Charlene, Blomfeldt, Anita, Aamot, Hege Vangstein, Laman, Moses, Manning, Laurens, Earls, Megan, Coleman, David C, Greenhill, Andrew, Ford, Rebecca, Stegger, Marc, Syed, Muhammad Ali, Jamil, Bushra, Monecke, Stefan, Ehricht, Ralf, Smith, Simon, Pomat, William, Horwood, Paul, Tong, Steven Y C, McBryde, Emma

“…Community-associated, methicillin-resistant (MRSA) lineages have emerged in many geographically distinct regions around the world during the past 30 y. Here,…”
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Intra‐ and interhost genomic diversity of monkeypox virus by Taouk, Mona L., Steinig, Eike, Taiaroa, George, Savic, Ivana, Tran, Thomas, Higgins, Nasra, Tran, Stephanie, Lee, Alvin, Braddick, Maxwell, Moso, Michael A., Chow, Eric P. F., Fairley, Christopher K., Towns, Janet, Chen, Marcus Y., Caly, Leon, Lim, Chuan K., Williamson, Deborah A.

“…The impact and frequency of infectious disease outbreaks demonstrate the need for timely genomic surveillance to inform public health responses. In the largest…”
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