Post List

Research / Scholarship posts

(Modify Search »)

  • April 15, 2014
  • 08:00 PM
  • 450 views

New Study Shows Surgical Checklists In Operating Rooms Are Less Effective Than Assumed

by Jalees Rehman in The Next Regeneration

Optimizing such tailored checklists, understanding why some studies indicate benefits of checklists whereas others do not and re-evaluating the efficacy of checklists in the non-academic setting will all require a substantial amount of future research before one can draw definitive conclusions about the efficacy of checklists. Regulatory agencies in Canada and the United Kingdom should reconsider their current mandates. Perhaps an even more important lesson to be learned is that health regulator........ Read more »

Urbach DR, Govindarajan A, Saskin R, Wilton AS, & Baxter NN. (2014) Introduction of surgical safety checklists in Ontario, Canada. The New England Journal of Medicine, 370(11), 1029-38. PMID: 24620866  

  • April 14, 2014
  • 04:00 AM
  • 379 views

Sacrificial and Common Graves Alike Reveal Diversity in Ancient City of Cahokia

by Blake de Pastino in Western Digs

Whether they died from natural causes or as sacrificial offerings, the residents of America’s largest prehistoric city were surprisingly diverse, with at least a third of the population having come from communities up to hundreds of kilometers away, according to new research of the settlement’s ancient graves.... Read more »

  • April 11, 2014
  • 12:46 PM
  • 415 views

Variant Annotation in Coding Regions

by Daniel Koboldt in Massgenomics

The analysis of NGS data comes with many challenges — data management, read alignment, variant calling, etc. — that the bioinformatics community has tackled with some success. Today I want to discuss another critical component of analysis that remains an unsolved problem: annotation of genetic variants. This process, in which we try to predict the […]... Read more »

Davis J McCarthy, Peter Humburg, Alexander Kanapin, Manuel A Rivas, Kyle Gaulton, The WGS500 Consortium, Jean-Baptiste Cazier and Peter Donnelly. (2014) Choice of transcripts and software has a large effect on variant annotation. Genome Medicine, 6(26). info:/doi:10.1186/gm543

  • April 10, 2014
  • 05:33 PM
  • 516 views

Tamiflu and Zanamivir: are they effective in treating Influenza or not ?

by thelonevirologist in Virology Tidbits

A recently published report from the Cochrane Colloboration suggested that two drugs which are used in the treatment of human Influenza are not as effective as reported in clinical studies, so it is worth to pause a moment and recapitulate how these drugs work and take a closer look at the report before rushing to any judgment.
... Read more »

Moscona, A. (2005) Neuraminidase Inhibitors for Influenza. New England Journal of Medicine, 353(13), 1363-1373. DOI: 10.1056/NEJMra050740  

Rossman JS, Jing X, Leser GP, Balannik V, Pinto LH, & Lamb RA. (2010) Influenza virus m2 ion channel protein is necessary for filamentous virion formation. Journal of virology, 84(10), 5078-88. PMID: 20219914  

Rossman JS, Leser GP, & Lamb RA. (2012) Filamentous influenza virus enters cells via macropinocytosis. Journal of virology, 86(20), 10950-60. PMID: 22875971  

van Riel D, den Bakker MA, Leijten LM, Chutinimitkul S, Munster VJ, de Wit E, Rimmelzwaan GF, Fouchier RA, Osterhaus AD, & Kuiken T. (2010) Seasonal and pandemic human influenza viruses attach better to human upper respiratory tract epithelium than avian influenza viruses. The American journal of pathology, 176(4), 1614-8. PMID: 20167867  

Loregian A, Mercorelli B, Nannetti G, Compagnin C, & Palù G. (2014) Antiviral strategies against influenza virus: towards new therapeutic approaches. Cellular and molecular life sciences : CMLS. PMID: 24699705  

  • April 10, 2014
  • 11:18 AM
  • 388 views

Why do dogs lick people?

by Cobb & Hecht in Do You Believe In Dog?

Just Wow. Photo: Chris Sembrot PhotographyHi Julie,Yes, but WHY? I loved Claudia Fugazza's guest post about drawing on dogs' social imitation capacities to learn as copy-cats in the Do as I do training technique. Good stuff! A few things collided this week that resulted in me deciding to look into why dogs lick people. The first was the Huffington Post 'This Is What Happens When You Ask People To Kiss Their Dogs In Front Of A Camera' (example above from Chris Sembrot's 'For the love o........ Read more »

Bradshaw John W.S., Blackwell Emily J., & Casey Rachel A. (2009) Dominance in domestic dogs—useful construct or bad habit?. Journal of Veterinary Behavior: Clinical Applications and Research, 4(3), 135-144. DOI: 10.1016/j.jveb.2008.08.004  

  • April 8, 2014
  • 11:45 AM
  • 411 views

Scientists Like Some Animals Better than Others (Hint: Bears)

by Elizabeth Preston in Inkfish

In the fight for attention from researchers, there are winners and there are civets. That’s what researchers found when they analyzed almost 16,500 published papers about animals from walruses to weasels. They saw clear trends in which animals are the most popular to study. And it matters because the most popular animals aren’t necessarily the […]The post Scientists Like Some Animals Better than Others (Hint: Bears) appeared first on Inkfish.... Read more »

  • April 4, 2014
  • 04:41 PM
  • 461 views

MERS-CoV orf4a -an antagonist of antiviral signaling

by thelonevirologist in Virology Tidbits

As mentioned in a previous entry MERS-CoV is capable to inhibit antiviral signaling by antagonizing interferon signaling pathways which are induced by the recognition of dsRNA by intracellular pathogen-associated molecular pattern (PAMP) receptors. Although having a ssRNA genome, dsRNA is produced during Coronavirus replication as an intermediate and thus can be recognized by Toll-like receptors -3 and -9 (TLR-3/TLR-9). ... Read more »

Niemeyer D, Zillinger T, Muth D, Zielecki F, Horvath G, Suliman T, Barchet W, Weber F, Drosten C, & Müller MA. (2013) Middle East respiratory syndrome coronavirus accessory protein 4a is a type I interferon antagonist. Journal of virology, 87(22), 12489-95. PMID: 24027320  

Yoneyama M, Kikuchi M, Natsukawa T, Shinobu N, Imaizumi T, Miyagishi M, Taira K, Akira S, & Fujita T. (2004) The RNA helicase RIG-I has an essential function in double-stranded RNA-induced innate antiviral responses. Nature immunology, 5(7), 730-7. PMID: 15208624  

  • April 2, 2014
  • 05:52 PM
  • 482 views

MERS-CoV and SARS-CoV: two members of a divergent family

by thelonevirologist in Virology Tidbits

Coronavirus infections are commonly associated with relative benign respiratory and enteric diseases in humans, such as the common cold, and with outbreaks among agricultural livestock -chickens, swine or cattle. The outbreak of a novel disease in humans, severe acute respiratory syndrome (SARS), in 2003 however highlighted the potential lethal consequences of Coronavirus (CoV) induced disease in the human population.
... Read more »

Pyrc, K., Berkhout, B., & van der Hoek, L. (2006) The Novel Human Coronaviruses NL63 and HKU1. Journal of Virology, 81(7), 3051-3057. DOI: 10.1128/JVI.01466-06  

Golda A, Malek N, Dudek B, Zeglen S, Wojarski J, Ochman M, Kucewicz E, Zembala M, Potempa J, & Pyrc K. (2011) Infection with human coronavirus NL63 enhances streptococcal adherence to epithelial cells. The Journal of general virology, 92(Pt 6), 1358-68. PMID: 21325482  

Ge XY, Li JL, Yang XL, Chmura AA, Zhu G, Epstein JH, Mazet JK, Hu B, Zhang W, Peng C.... (2013) Isolation and characterization of a bat SARS-like coronavirus that uses the ACE2 receptor. Nature, 503(7477), 535-8. PMID: 24172901  

de Wilde AH, Raj VS, Oudshoorn D, Bestebroer TM, van Nieuwkoop S, Limpens RW, Posthuma CC, van der Meer Y, Bárcena M, Haagmans BL.... (2013) MERS-coronavirus replication induces severe in vitro cytopathology and is strongly inhibited by cyclosporin A or interferon-α treatment. The Journal of general virology, 94(Pt 8), 1749-60. PMID: 23620378  

  • March 29, 2014
  • 06:50 PM
  • 438 views

Human cancers and viruses: 50 years of Epstein Barr Virus

by thelonevirologist in Virology Tidbits

March marked the 50th anniversary of the discovery of Epstein-Barr Virus (EBV) - an anniversary which the author of this blog almost missed, wouldn’t it have been for an article published Science on March 21st.... Read more »

Butel, J., & Fan, H. (2012) The diversity of human cancer viruses. Current Opinion in Virology, 2(4), 449-452. DOI: 10.1016/j.coviro.2012.07.002  

Hammerschmidt, W., & Sugden, B. (2013) Replication of Epstein-Barr Viral DNA. Cold Spring Harbor Perspectives in Biology, 5(1). DOI: 10.1101/cshperspect.a013029  

Daikoku T, Kudoh A, Fujita M, Sugaya Y, Isomura H, Shirata N, & Tsurumi T. (2005) Architecture of replication compartments formed during Epstein-Barr virus lytic replication. Journal of virology, 79(6), 3409-18. PMID: 15731235  

Tsurumi, T., Fujita, M., & Kudoh, A. (2005) Latent and lytic Epstein-Barr virus replication strategies. Reviews in Medical Virology, 15(1), 3-15. DOI: 10.1002/rmv.441  

Arnaud F, Varela M, Spencer TE, & Palmarini M. (2008) Coevolution of endogenous betaretroviruses of sheep and their host. Cellular and molecular life sciences : CMLS, 65(21), 3422-32. PMID: 18818869  

Allison AB, Kevin Keel M, Philips JE, Cartoceti AN, Munk BA, Nemeth NM, Welsh TI, Thomas JM, Crum JM, Lichtenwalner AB.... (2014) Avian oncogenesis induced by lymphoproliferative disease virus: a neglected or emerging retroviral pathogen?. Virology, 2-12. PMID: 24503062  

Fuentes-González, A., Contreras-Paredes, A., Manzo-Merino, J., & Lizano, M. (2013) The modulation of apoptosis by oncogenic viruses. Virology Journal, 10(1), 182. DOI: 10.1186/1743-422X-10-182  

  • March 28, 2014
  • 01:35 PM
  • 45 views

What’s the best diet to get rid of acne?

by Stuart Farrimond in Guru: Science Blog

Forget the ‘golden days of childhood’, I’ve always thought that being an adult is so much better. For one thing, who would want all the zits, spots, pimples and pustules that afflict adolescence? (I was one of the unlucky ones.) […]The post What’s the best diet to get rid of acne? appeared first on Guru Magazine.... Read more »

Spencer, E., Ferdowsian, H., & Barnard, N. (2009) Diet and acne: a review of the evidence. International Journal of Dermatology, 48(4), 339-347. DOI: 10.1111/j.1365-4632.2009.04002.x  

  • March 28, 2014
  • 09:57 AM
  • 463 views

Patching the Leaky Pipeline of Women in STEM

by amikulak in Daily Observations

March is designated Women’s History Month in the United States, recognizing “generations of women whose commitment to nature and the planet have proved invaluable to society.” And yet, as we […]... Read more »

  • March 26, 2014
  • 06:45 PM
  • 330 views

The Ugly Ducklings of Science

by Neuroskeptic in Neuroskeptic_Discover

A group of management researchers provide new evidence of a worrying bias in the scientific process – The Chrysalis Effect: How Ugly Initial Results Metamorphosize Into Beautiful Articles ( via Retraction Watch ) The issue they highlight – the ability of researchers to eventually squeeze support for a theory out of initially negative data – […]The post The Ugly Ducklings of Science appeared first on Neuroskeptic.... Read more »

  • March 26, 2014
  • 05:04 PM
  • 328 views

Encephalitis lethargica and Influenza: a case of mistaken identity with a twist

by thelonevirologist in Virology Tidbits

Following the Influenza epidemic in 1918, physicians observed an increase in cases of Encephalitis lethargica (EL), the acute (often lethal) phase followed by post encephalitic parkinsonism (PEP), the latter affecting patients for several decades.

Based on the observation that these patients might have been infected with the 1918 Influenza virus, the conclusion was reached that a long-term consequence of Influenza might be the development of a neurological disease. ... Read more »

Ward AC. (1996) Neurovirulence of influenza A virus. Journal of neurovirology, 2(3), 139-51. PMID: 8799206  

Nichols JE, Niles JA, & Roberts NJ Jr. (2001) Human lymphocyte apoptosis after exposure to influenza A virus. Journal of virology, 75(13), 5921-9. PMID: 11390593  

Dale RC, Church AJ, Surtees RA, Lees AJ, Adcock JE, Harding B, Neville BG, & Giovannoni G. (2004) Encephalitis lethargica syndrome: 20 new cases and evidence of basal ganglia autoimmunity. Brain : a journal of neurology, 127(Pt 1), 21-33. PMID: 14570817  

  • March 25, 2014
  • 12:02 AM
  • 390 views

“I am Working-Class”: Self-Identification as a Measure of Social Class in Educational Research

by Mark Rubin in Mark Rubin's Social Psychology Research Blog

Governments around the world are trying to open up higher education to working-class people. For example, in January this year, the White House released a report titled: "Increasing college opportunity for low-income students: Promising models and a call to action." In the context of this general push towards widening participation in higher education, my colleagues and I have been developing a research project that aims to investigate social class differences in social integration among student........ Read more »

  • March 24, 2014
  • 04:30 PM
  • 453 views

Molecular aspects of Ebola and other Filoviruses

by thelonevirologist in Virology Tidbits

In the last few days news organizations reported an outbreak of Ebola in West Africa, leading (as of March 24th) to a death of 59 out of 80 infected people. The Ebola virus and its variant Marburg virus are known to be one the most lethal viruses infecting humans. Once infected patients die of hemorrhagic fever, a painful and agonizing death characterized by fever, excessive blood loss and diarrhea. There is no effective therapy, except replacing fluids, blood, coagualnts as well as relativ........ Read more »

Mühlberger E. (2007) Filovirus replication and transcription. Future virology, 2(2), 205-215. PMID: 24093048  

Kiley MP, Bowen ET, Eddy GA, Isaäcson M, Johnson KM, McCormick JB, Murphy FA, Pattyn SR, Peters D, Prozesky OW.... (1982) Filoviridae: a taxonomic home for Marburg and Ebola viruses?. Intervirology, 18(1-2), 24-32. PMID: 7118520  

Hoenen T, Shabman RS, Groseth A, Herwig A, Weber M, Schudt G, Dolnik O, Basler CF, Becker S, & Feldmann H. (2012) Inclusion bodies are a site of ebolavirus replication. Journal of virology, 86(21), 11779-88. PMID: 22915810  

Iwasa A, Halfmann P, Noda T, Oyama M, Kozuka-Hata H, Watanabe S, Shimojima M, Watanabe T, & Kawaoka Y. (2011) Contribution of Sec61α to the life cycle of Ebola virus. The Journal of infectious diseases. PMID: 21987770  

  • March 23, 2014
  • 02:30 PM
  • 456 views

Nanopillars of nanotubes! A novel method to drastically improve charge transport in hybrid nanotube devices

by Jonathan Trinastic in Goodnight Earth

A new article demonstrates a method to drastically increase the conductivity of hybrd CNT-polymer devices using nano-engineering!... Read more »

  • March 21, 2014
  • 06:52 PM
  • 288 views

Influenza and the Great War: a contribution to the centenary of the Great War

by thelonevirologist in Virology Tidbits

This year marks the centenary of the beginning of the Great War -or outside of Great Britain more commonly known as World War 1 - so I think it is time to look at a chapter of the war often neglected. Instead of focusing on the beginning of the war, I would like to draw attention to the end of the war in 1918 – in particular on Germany whose defeat in 1918 coincided with the Influenza epidemic.The influenza epidemic of 1918/1919 became widely known as the “Spanish Influenza”, a title misle........ Read more »

Oxford JS, Sefton A, Jackson R, Innes W, Daniels RS, & Johnson NP. (2002) World War I may have allowed the emergence of "Spanish" influenza. The Lancet infectious diseases, 2(2), 111-4. PMID: 11901642  

Erkoreka A. (2009) Origins of the Spanish Influenza pandemic (1918-1920) and its relation to the First World War. Journal of molecular and genetic medicine : an international journal of biomedical research, 3(2), 190-4. PMID: 20076789  

  • March 19, 2014
  • 04:00 PM
  • 284 views

Archaeovirology: Solving the riddles of the past

by thelonevirologist in Virology Tidbits

In recent years the advent of modern technology allowed researchers to amplify ancient DNA from a variant of organisms - organisms ranging from Homo (sapiens) neanderthalensis (more commonly known as the Neanderthal) to insects enclosed in amber. Common problems found is the scarcity of DNA due to the age of the specimen and problems of contamination with foreign DNA , the latter being a problem if human specimens are involved. In terms of pathogens, a recent paper in Scientific Reports research........ Read more »

Raoult D, Dutour O, Houhamdi L, Jankauskas R, Fournier PE, Ardagna Y, Drancourt M, Signoli M, La VD, Macia Y.... (2006) Evidence for louse-transmitted diseases in soldiers of Napoleon's Grand Army in Vilnius. The Journal of infectious diseases, 193(1), 112-20. PMID: 16323139  

Devault AM, McLoughlin K, Jaing C, Gardner S, Porter TM, Enk JM, Thissen J, Allen J, Borucki M, Dewitte SN.... (2014) Ancient pathogen DNA in archaeological samples detected with a Microbial Detection Array. Scientific reports, 4245. PMID: 24603850  

Weingartl HM, Albrecht RA, Lager KM, Babiuk S, Marszal P, Neufeld J, Embury-Hyatt C, Lekcharoensuk P, Tumpey TM, García-Sastre A.... (2009) Experimental infection of pigs with the human 1918 pandemic influenza virus. Journal of virology, 83(9), 4287-96. PMID: 19224986  

Legendre M, Bartoli J, Shmakova L, Jeudy S, Labadie K, Adrait A, Lescot M, Poirot O, Bertaux L, Bruley C.... (2014) Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology. Proceedings of the National Academy of Sciences of the United States of America. PMID: 24591590  

Philippe N, Legendre M, Doutre G, Couté Y, Poirot O, Lescot M, Arslan D, Seltzer V, Bertaux L, Bruley C.... (2013) Pandoraviruses: amoeba viruses with genomes up to 2.5 Mb reaching that of parasitic eukaryotes. Science (New York, N.Y.), 341(6143), 281-6. PMID: 23869018  

  • March 18, 2014
  • 12:10 PM
  • 84 views

Protein magician detangles DNA and also primes genes in stem cells

by Amanda Alvarez in IMB Blog

Topoisomerases stretch and untangle DNA. Scientists at IMB have found new functions for these proteins in young stem cells and mature differentiated cells.... Read more »

Thakurela, S., Garding, A., Jung, J., Schübeler, D., Burger, L., & Tiwari, V. (2013) Gene regulation and priming by topoisomerase IIα in embryonic stem cells. Nature Communications. DOI: 10.1038/ncomms3478  

  • March 17, 2014
  • 12:49 AM
  • 449 views

AIS-INMACA: A Novel Integrated MACA Based Clonal Classifier for Protein Coding and Promoter Region Prediction

by JBCG in JScholar Publishers

Most of the problems in bioinformatics are now the challenges in computing. This paper aims at building a classifier based on Multiple Attractor Cellular Automata (MACA) which uses fuzzy logic. It is strengthened with an artificial Immune System Technique (AIS), Clonal algorithm for identifying a protein coding and promoter region in a given DNA sequence.... Read more »

Pokkuluri Kiran Sree*, Inampudi Ramesh Babu, SSSN Usha Devi N. (2014) AIS-INMACA: A Novel Integrated MACA Based Clonal Classifier for Protein Coding and Promoter Region Prediction. JOURNAL OF BIOINFORMATICS AND COMPARATIVE GENOMICS, 1(1), 1-7. info:/JBCG 1: 104

join us!

Do you write about peer-reviewed research in your blog? Use ResearchBlogging.org to make it easy for your readers — and others from around the world — to find your serious posts about academic research.

If you don't have a blog, you can still use our site to learn about fascinating developments in cutting-edge research from around the world.

Register Now

Research Blogging is powered by SMG Technology.

To learn more, visit seedmediagroup.com.