Posts

July 09, 2014

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1:37 PM | Video Tip of the Week: Google Genomics, API and GAbrowse
This week’s video tip comes to us from Google–it’s about their participation in the “Global Alliance for Genomics and Health” coalition. Global Alliance is aimed at developing genomic data standards for interoperability, and they’ve been working on creating the framework (some background links below in the references will provide further details). It has over 170 […]

(2013). Global Alliance to Create Standards For Sharing Genomic Data, American Journal of Medical Genetics Part A, 161 (9) xi-xi. DOI: http://dx.doi.org/10.1002/ajmg.a.36168

Callaway E. (2014). Global genomic data-sharing effort kicks off, Nature, DOI: http://dx.doi.org/10.1038/nature.2014.14826

Terry S.F. (2014). The Global Alliance for Genomics , Genetic Testing and Molecular Biomarkers, 18 (6) 375-376. DOI: http://dx.doi.org/10.1089/gtmb.2014.1555

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1:21 PM | Clothing the Dead in Ancient Peru
Why is clothing on the dead so important? Because what we choose to put on our bodies conveys social meanings about our wealth, our status, and the social groups we […]

Baitzel, S. & Goldstein, P. (2014). More than the sum of its parts: Dress and social identity in a provincial Tiwanaku child burial, Journal of Anthropological Archaeology, 35 51-62. DOI: 10.1016/j.jaa.2014.04.001

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12:00 PM | What’s So Repelling About Repellents?
Biology concepts – thermosensing, repellent, odor receptors, gustatory receptors, semiochemcialsScience explains our world, and then technology and engineering build a model of that for our use. The better we know how our universe works, the better we can make use of it. In the 1985 film Real Genius, this difference is stated when the scientist students ask what a 6 megawatt laser might be for, one student says, “Let the engineers figure out a use for it.” In this case, they […]

DeGennaro M, McBride CS, Seeholzer L, Nakagawa T, Dennis EJ, Goldman C, Jasinskiene N, James AA & Vosshall LB (2013). orco mutant mosquitoes lose strong preference for humans and are not repelled by volatile DEET., Nature, 498 (7455) 487-91. PMID: http://www.ncbi.nlm.nih.gov/pubmed/23719379

Stanczyk NM, Brookfield JF, Field LM & Logan JG (2013). Aedes aegypti mosquitoes exhibit decreased repellency by DEET following previous exposure., PloS one, 8 (2) PMID: http://www.ncbi.nlm.nih.gov/pubmed/23437043

Klun JA, Kramer M & Debboun M (2013). Four simple stimuli that induce host-seeking and blood-feeding behaviors in two mosquito species, with a clue to DEET's mode of action., Journal of vector ecology : journal of the Society for Vector Ecology, 38 (1) 143-53. PMID: http://www.ncbi.nlm.nih.gov/pubmed/23701619

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8:46 AM | You can do it! Self-talk is more effective when you refer to yourself as You, rather than I
We know self-talk can help people's self-control (e.g. "Don't do it!"), and boost their morale (e.g. "Hang in there!") in sporting situations. However, before now, no-one has investigated whether self-talk is more effective depending on whether you refer to yourself in the grammatical first person (i.e. "I can do it!") or the second person (i.e. "You can do it?").Sanda Dolcos and her team first asked 95 psychology undergrads to imagine they were a character in a short story. The […]

Dolcos, S. & Albarracin, D. (2014). The inner speech of behavioral regulation: Intentions and task performance strengthen when you talk to yourself as a You, European Journal of Social Psychology, DOI: 10.1002/ejsp.2048

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8:30 AM | Maize lethal necrosis has spread to Rwanda
Report by Abigail Rumsey, Beatrice Uwumukiza and Bellancila Uzayisenga. In the past two years, we have reported on the presence of the maize lethal necrosis (MLN) disease in East African countries including Kenya, Tanzania and Uganda. The disease is also present in South Sudan. The most recent report has been of its spread to the […]

Adams, I., Harju, V., Hodges, T., Hany, U., Skelton, A., Rai, S., Deka, M., Smith, J., Fox, A., Uzayisenga, B. & Ngaboyisonga, C. (2014). First report of maize lethal necrosis disease in Rwanda, New Disease Reports, 29 22. DOI: 10.5197/j.2044-0588.2014.029.022

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7:50 AM | Woman grows nose tissue in spine after stem cell treatment
A spinal mass was identified in a young woman with complete spinal cord injury 8 years after she had undergone implantation of olfactory mucosal cells in the hopes of regaining sensory and motor function.The case was presented yesterday, in the Journal of Neurosurgery. The authors say that this is the first report of a spinal cord mass arising from spinal cord cell transplantation and neural stem cell therapy, and they caution that physicians should be vigilant in their follow-up of patients […]

Dlouhy, B., Awe, O., Rao, R., Kirby, P. & Hitchon, P. (2014). Autograft-derived spinal cord mass following olfactory mucosal cell transplantation in a spinal cord injury patient, Journal of Neurosurgery: Spine, 1-5. DOI: 10.3171/2014.5.SPINE13992

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July 08, 2014

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6:17 PM | Skin Cells and Skin… smells?!
Yeah we all know that your nose smells. Yawn! Boring I know, this isn’t kindergarten this is Loony Labs! Thankfully that isn’t what I have for you [as much as […]

Busse, D., Kudella, P., Grüning, N., Gisselmann, G., Ständer, S., Luger, T., Jacobsen, F., Steinsträßer, L., Paus, R., Gkogkolou, P. & Böhm, M. (2014). A Synthetic Sandalwood Odorant Induces Wound Healing Processes in Human Keratinocytes via the Olfactory Receptor OR2AT4, Journal of Investigative Dermatology, DOI: 10.1038/jid.2014.273

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2:25 PM | New Electrochemistry Tech Makes Batteries Last Longer
Scientists at the University of Alberta have used a process called induced fluorination to create faster-charging, longer-lasting batteries.

Cui X, Chen J, Wang T & Chen W (2014). Rechargeable Batteries with High Energy Storage Activated by In-situ Induced Fluorination of Carbon Nanotube Cathode., Scientific reports, 4 5310. PMID: http://www.ncbi.nlm.nih.gov/pubmed/24931036

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10:56 AM | Striped Pyjama Squid
Striped Pyjama SquidKingdom: AnimaliaPhylum: MolluscaClass: CephalopodaOrder: SepiidaFamily: SepioloideaGenus: SepioloideaSpecies: Sepioloidea  lineolataConservation Status: Not yet assessedCommon name(s): Striped Pyjama Squid, Striped Dumpling SquidUnlike other strange animals that have been previously featured on the site, it's pretty much obvious why the striped pyjama squid was named this way. Although technically a cuttlefish and not a squid, it does look like it’s wearing […]

Talbot, C. & Marshall, J. (2010). Polarization sensitivity and retinal topography of the striped pyjama squid (Sepioloidea lineolata - Quoy/Gaimard 1832), Journal of Experimental Biology, 213 (19) 3371-3377. DOI: 10.1242/jeb.048165

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9:25 AM | Coenzyme Q10 and autism
The paper by Frederick Crane and colleagues [1] (open-access here) caught my eye recently and their suggestion that when it comes to autism there may be more research to do on coenzyme Q10. Indeed, the old grey-pinkish matter started grinding into action as to whether there may be a wider research literature on CoQ10 with a focus on autism...A helping hand? @ Wikipedia Coenzyme Q10 otherwise known as ubiquinone, has appeared before on this blog for various reasons (see here and […]

Crane FL, Löw H, Sun I, Navas P & Gvozdjáková A (2014). Plasma membrane coenzyme Q: evidence for a role in autism., Biologics : targets & therapy, 8 199-205. PMID: http://www.ncbi.nlm.nih.gov/pubmed/24920882

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8:17 AM | Researchers discover important piece in the brain tumour puzzle
Researchers at the Montreal Neurological Institute and Hospital, McGill University and McGill University Health Centre have shown that a member of the protein family known as SUMO (small ubiquitin-like modifier) is a key to why tumour cells multiply uncontrollably, especially in the case of glioblastoma. The SUMO family proteins modify other proteins and the SUMOylation of proteins are critical for many cellular processes. Identifying SUMO's role in the cancer cell growth will lead to a new […]

Bellail, A., Olson, J. & Hao, C. (2014). SUMO1 modification stabilizes CDK6 protein and drives the cell cycle and glioblastoma progression, Nature Communications, 5 DOI: 10.1038/ncomms5234

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July 07, 2014

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8:09 PM | Is there such a thing as an anti-depression diet?
Summary: People who suffer from depression seem to experience more oxidative stress and inflammation than others.  A diet high in anti-oxidants, fermentable fiber and low in saturated and transfats may protect against inflammatory stress in the brain and elsewhere.  More research needed.  The topic is under investigation. Introduction: We recently posted an article about the […] The post Is there such a thing as an anti-depression diet? appeared first on WODMasters: Stiff […]

Moylan S, Berk M, Dean OM, Samuni Y, Williams LJ, O'Neil A, Hayley AC, Pasco JA, Anderson G, Jacka FN & Maes M (2014). Oxidative & nitrosative stress in depression: Why so much stress?, Neuroscience and biobehavioral reviews, 45C 46-62. PMID: http://www.ncbi.nlm.nih.gov/pubmed/24858007

Maes M, Kubera M, Leunis JC & Berk M (2012). Increased IgA and IgM responses against gut commensals in chronic depression: further evidence for increased bacterial translocation or leaky gut., Journal of affective disorders, 141 (1) 55-62. PMID: http://www.ncbi.nlm.nih.gov/pubmed/22410503

Maslowski KM, Vieira AT, Ng A, Kranich J, Sierro F, Yu D, Schilter HC, Rolph MS, Mackay F, Artis D & Xavier RJ (2009). Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43., Nature, 461 (7268) 1282-6. PMID: http://www.ncbi.nlm.nih.gov/pubmed/19865172

Pistell PJ, Morrison CD, Gupta S, Knight AG, Keller JN, Ingram DK & Bruce-Keller AJ (2010). Cognitive impairment following high fat diet consumption is associated with brain inflammation., Journal of neuroimmunology, 219 (1-2) 25-32. PMID: http://www.ncbi.nlm.nih.gov/pubmed/20004026

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5:27 PM | Staying up late? You’re going Crazy
All night cram sessions, anyone in college has probably had more than just a few of these [okay maybe only if you are a procrastinator like me]. If you have […]

Phillips, K., Bartsch, U., McCarthy, A., Edgar, D., Tricklebank, M., Wafford, K. & Jones, M. (2012). Decoupling of Sleep-Dependent Cortical and Hippocampal Interactions in a Neurodevelopmental Model of Schizophrenia, Neuron, 76 (3) 526-533. DOI: 10.1016/j.neuron.2012.09.016

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4:04 PM | The Bone-house Wasp
The newly discovered Bone-house wasp, Deuteragenia ossarium, builds a unique nest for its young. Unlike species which excavate their own …Continue reading →

Staab, M., Ohl, M., Zhu, C. & Klein, A. (2014). A Unique Nest-Protection Strategy in a New Species of Spider Wasp, PLoS ONE, 9 (7) DOI: 10.1371/journal.pone.0101592

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Editor's Pick
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3:05 PM | Florida Clampdown on Pain Pills Lowers Drug-Related Mortality
Ever since I started working with the homeless youth of Delhi, I have noticed their drug and substance dependence issues and how, despite knowing the ill-effects, they have not been able to get out from under the chemical spell. Thus, when I came across a short report in the CDC’s Morbidity and Mortality Weekly Reports that Florida…

Johnson H, Paulozzi L, Porucznik C, Mack K, Herter B & Hal Johnson Consulting and Division of Disease Control and Health Promotion, Florida Department of Health (2014). Decline in drug overdose deaths after state policy changes - Florida, 2010-2012., MMWR. Morbidity and mortality weekly report, 63 (26) 569-74. PMID: http://www.ncbi.nlm.nih.gov/pubmed/24990490

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2:41 PM | Mathematical Model Helps Identify Gas Hydrate Pockets
Scientists at Rice University have developed a mathematical model that simulates gas hydrate and free gas accumulation under the ocean floor.

Chatterjee, S., Bhatnagar, G., Dugan, B., Dickens, G., Chapman, W. & Hirasaki, G. (2014). The Impact of Lithologic Heterogeneity and Focused Fluid Flow upon Gas Hydrate Distribution in Marine Sediments, Journal of Geophysical Research: Solid Earth, DOI: 10.1002/2014JB011236

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2:33 PM | MERS CoV: Can it spread from camels to man?
The Middle Eastern Respiratory Syndrome coronavirus (MERS CoV) is a novel single stranded RNA virus that has been doing the rounds in the Middle East, bits of Europe and North America. Given our experiences the last time we had a new respiratory virus (remember the pandemic?), things have moved rather fast this time once the…

Azhar, E., El-Kafrawy, S., Farraj, S., Hassan, A., Al-Saeed, M., Hashem, A. & Madani, T. (2014). Evidence for Camel-to-Human Transmission of MERS Coronavirus, New England Journal of Medicine, 370 (26) 2499-2505. DOI: 10.1056/NEJMoa1401505

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7:18 AM | Reproductive stoppage related to autism
The paper by Thomas Hoffmann and colleagues [1] on reproductive stoppage - the decision to not have more children - in couples with a child already diagnosed with an autism spectrum disorder (ASD) is the source for today's post. This is both an important and delicate area to talk about so I tread very carefully in my discussions.The Holy Infants @ Wikipedia A few details first:Based on records held at the California Department of Developmental Services, children born between 1990 […]

Hoffmann, T., Windham, G., Anderson, M., Croen, L., Grether, J. & Risch, N. (2014). Evidence of Reproductive Stoppage in Families With Autism Spectrum Disorder, JAMA Psychiatry, DOI: 10.1001/jamapsychiatry.2014.420

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July 06, 2014

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6:13 PM | fMRI Motion Correction: The Quick and the Dead
The infamous dead salmon brain scan study may just have been eclipsed, in the ‘most ghoulish demonstration of a methodological pitfall in fMRI‘ stakes. A new study examines the issue of motion artifacts, a major concern in much neuroimaging research – and it does so by scanning dead people. The new paper has the unwieldy […]The post fMRI Motion Correction: The Quick and the Dead appeared first on Neuroskeptic.

Beall EB & Lowe MJ (2014). SimPACE: Generating simulated motion corrupted BOLD data with synthetic-navigated acquisition for the development and evaluation of SLOMOCO: A new, highly effective slicewise motion correction., NeuroImage, PMID: http://www.ncbi.nlm.nih.gov/pubmed/24969568

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5:10 PM | New tool helps Doctors treat Menopause
With the SCOTUS ruling for the Hobby Lobby case [if you have no idea what I am talking about you can read about that anywhere on the net, like here] […]

Jane, F. & Davis, S. (2014). A Practitioner's Toolkit for Managing the Menopause , Climacteric, 1-16. DOI: 10.3109/13697137.2014.929651

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5:03 PM | Emperors in danger: penguin populations predicted to decline due to climate change and sea ice loss
If pop culture is any indication, we hold a special place in our heart for penguins compared to the many other denizens of the animal kingdom. Maybe it is something about the close-knit familial communities that have been portrayed in documentaries … Continue reading →

Jenouvrier, S., Holland, M., Stroeve, J., Serreze, M., Barbraud, C., Weimerskirch, H. & Caswell, H. (2014). Projected continent-wide declines of the emperor penguin under climate change, Nature Climate Change, DOI: 10.1038/nclimate2280

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3:07 PM | New Species of Spider Wasp Uses Ant Corpses to Protect Its Nests
A newly discovered wasp species uses the corpses of dead ants as scarecrows, to protect its nest from predators, according to a new study by researchers at the University of Freiburg. Scientifically described as Deuteragenia ossarium and dubbed as the Bone-house wasp, the species uses the chemical cues from ant corpses to ward off predators, by stuffing them into the crevices of its home. The species was discovered in Jiangxi Province in south east China.Wasps use a wide range of […]

Staab, M., Ohl, M., Zhu, C. & Klein, A. (2014). A Unique Nest-Protection Strategy in a New Species of Spider Wasp, PLoS ONE, 9 (7) DOI: 10.1371/journal.pone.0101592

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July 05, 2014

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5:00 PM | Breast Cancer… and Cholesterol?!
Cholesterol, it’s bad for the heart. We know LDL bad, HDL good, eat healthier or ruin your arteries. I’m sure most of us have seen the public service announcements [at […]

Potluri, R., Lavu, D., Uppal, H. & Chandran, S. (2014). P740 Hyperlipidaemia as a risk factor for breast cancer?, Cardiovascular Research, 103 (suppl 1) DOI: 10.1093/cvr/cvu098.160

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11:12 AM | Who can afford to hold back rising seas?
Though using dikes to protect the world from rising sea levels will generally make economic sense, explains Jochen Hinkel from the Global Climate Forum, poor countries may not have the resources to do so.

Hinkel, J., Lincke, D., Vafeidis, A., Perrette, M., Nicholls, R., Tol, R., Marzeion, B., Fettweis, X., Ionescu, C. & Levermann, A. & (2014). Coastal flood damage and adaptation costs under 21st century sea-level rise, Proceedings of the National Academy of Sciences, 111 (9) 3292-3297. DOI: 10.1073/pnas.1222469111

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July 04, 2014

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5:00 PM | Finally! A Definite Cause of Autism: Hint it isn’t Vaccines
Autism, not caused by vaccines. In fact I’ve written several posts on the genetic clues to autism, now a new study offers more proof that it is purely genetic [at […]

Bernier, R., Golzio, C., Xiong, B., Stessman, H., Coe, B., Penn, O., Witherspoon, K., Gerdts, J., Baker, C., Vulto-van Silfhout, A. & Schuurs-Hoeijmakers, J. (2014). Disruptive CHD8 Mutations Define a Subtype of Autism Early in Development, Cell, DOI: 10.1016/j.cell.2014.06.017

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July 03, 2014

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6:02 PM | Transparent Graphite Can Be Used to Make Better Solar Cells
Scientists at the University of Maryland Energy Research Center and Monash University, Australia, have used lithium to make a graphite sheet transparent and highly conductive. This new material shows promise for applications in solar cells, flexible displays and touchscreens.

Bao, W., Wan, J., Han, X., Cai, X., Zhu, H., Kim, D., Ma, D., Xu, Y., Munday, J., Drew, H. & Fuhrer, M. (2014). Approaching the limits of transparency and conductivity in graphitic materials through lithium intercalation, Nature Communications, 5 DOI: 10.1038/ncomms5224

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5:00 PM | Why you Should Not Fear Testosterone Therapy
Testosterone, to some it’s a bad word, bringing crazy images like “roid rage” and the like. To others with more than just a pop culture understanding it is a lifesaver. […]

Baillargeon J., Urban R.J., Kuo Y.F., Ottenbacher K.J. & Raji M.A. (2014). Risk of Myocardial Infarction in Older Men Receiving Testosterone Therapy, The Annals of Pharmacotherapy, DOI: 10.1177/1060028014539918

Miner M., Gary Blick, Harvey Kushner & Mohit Khera (2013). 12-Month Observation of Testosterone Replacement Effectiveness in a General Population of Men, Postgraduate Medicine, 125 (2) 8-18. DOI: http://dx.doi.org/10.3810/pgm.2013.03.2637

Almeida O.P., Graeme J. Hankey, Konrad Jamrozik & Leon Flicker (2008). Low Free Testosterone Concentration as a Potentially Treatable Cause of Depressive Symptoms in Older Men, Archives of General Psychiatry, 65 (3) 283. DOI: http://dx.doi.org/10.1001/archgenpsychiatry.2007.33

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2:20 PM | Simple Process Improves Manufacturing of Silicon Nanoholes
Scientists at the A*STAR Singapore Institute of Manufacturing Technology and Nanyang Technological University have invented a simple procedure that transforms silver nanospheres into silicon nanoholes. The process can significantly increase the cost-effectiveness of nanowire-based solar cells.

Hong, L., Wang, X., Zheng, H., He, L., Wang, H., Yu, H. & Rusli, . (2014). High efficiency silicon nanohole/organic heterojunction hybrid solar cell, Applied Physics Letters, 104 (5) 53104. DOI: 10.1063/1.4863965

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1:59 PM | What’s the Answer? (mutation nomenclature)
Biostars is a site for asking, answering and discussing bioinformatics questions and issues. We are members of the community and find it very useful. Often questions and answers arise at Biostars that are germane to our readers (end users of genomics resources). Every Thursday we will be highlighting one of those items or discussions here […]

Laros J.F.J., Johan T den Dunnen & Peter E M Taschner (2011). A formalized description of the standard human variant nomenclature in Extended Backus-Naur Form, BMC Bioinformatics, 12 (Suppl 4) S5. DOI: http://dx.doi.org/10.1186/1471-2105-12-s4-s5

Soussi T. & Peter E.M. Taschner (2014). Recommendations for Analyzing and Reporting TP53 Gene Variants in the High-Throughput Sequencing Era , Human Mutation, 35 (6) 766-778. DOI: http://dx.doi.org/10.1002/humu.22561

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11:55 AM | Goalward-bound: why biological research is like football
The 2014 FIFA World Cup has mesmerised football fans all around the world over the past weeks, but besides just the fancy footwork on display, we’ve also seen some amazing athleticism. Many of the matches have taken place under scorching, highly humid conditions! Though this might not be foremost in our minds as marvel at […]

Ciglar, L., Girardot, C., Wilczy ski, B., Braun, M. & Furlong, E. (2014). Coordinated repression and activation of two transcriptional programs stabilizes cell fate during myogenesis, Development, 141 (13) 2633-2643. DOI: 10.1242/dev.101956

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