Chemistry posts
- July 10, 2012
- 03:45 AM
- 204 views
Arylethynylenes in Photovoltaics
by postgradsci in interested in science?
A Chem. Comm. out online towards the end of June reports on the use of an arylethynylene in a solution-processable solar cell. Arylethynylenes can best be described by an example: [...]... Read more »
Shin et al. (2012) J-aggregation Induced Low Bandgap Anthracene-based Conjugated Molecule for Solution-processed Solar Cells. Chem. Comm. DOI: 10.1039/c2cc34109c
- July 6, 2012
- 01:20 PM
- 391 views
Meet the NanoPutians
by Melissa Chernick in Science Storiented
It is always nice to be reminded that science can have a sense of humor. For instance, I know that biology has a long history of naming insects after famous people including movie stars (such as the dolichopodid fly Campsicnemius charliechaplini), writers (like the dinosaur Serendipaceratops arthurclarkei), musicians (such as the trilobites Avalachurus lennoni, A. starri, and Struszia mccartneyi), science educators (like the land snail Crikey steveirwini), and even fictional characters (such ........ Read more »
Stephanie H. Chanteau, & James M. Tour. (2003) Synthesis of Anthropomorphic Molecules: The NanoPutians. The Journal of Organic Chemistry, 68(23), 8750-8766. DOI: 10.1021/jo0349227
- July 5, 2012
- 05:29 PM
- 289 views
Ferroptosis, another way cells die
by Clay Clark in Biochem Blogs
There are a number of processes that lead to the death of a cell: apoptosis, necrosis, and autophagy are the primary mechanisms – each has a distinct biochemical and morphological fingerprint. In a new paper by Brent Stockwell’s lab at … Continue reading →... Read more »
Dixon Scott J., Lemberg Kathryn M., Lamprecht Michael R., Skouta Rachid, Zaitsev Eleina M., Gleason Caroline E., Patel Darpan N., Bauer Andras J., Cantley Alexandra M., & Yang Wan Seok. (2012) Ferroptosis: An Iron-Dependent Form of Nonapoptotic Cell Death. Cell, 149(5), 1072. DOI: 10.1016/j.cell.2012.03.042
Dolma Sonam, Lessnick Stephen L, Hahn William C, & Stockwell Brent R. (2003) Identification of genotype-selective antitumor agents using synthetic lethal chemical screening in engineered human tumor cells. Cancer Cell, 3(3), 296. DOI: 10.1016/S1535-6108(03)00050-3
Yang Wan Seok, & Stockwell Brent R. (2008) Synthetic Lethal Screening Identifies Compounds Activating Iron-Dependent, Nonapoptotic Cell Death in Oncogenic-RAS-Harboring Cancer Cells. Chemistry , 15(3), 245. DOI: 10.1016/j.chembiol.2008.02.010
- June 29, 2012
- 04:42 PM
- 447 views
How fireworks light up the sky
by Cath in Basal Science (BS) Clarified
Many countries/regions will be celebrating their national/independence day over the weekend and into next week, so you’ll likely have a chance to see some fireworks whether in person, on television, [...]... Read more »
Roncone, K. (2004) Things that go boom in the night: The art and science of fireworks. JOM JOURNAL OF THE MINERALS, METALS AND MATERIALS SOCIETY. DOI: 10.1007/s11837-004-0084-8
- June 27, 2012
- 03:35 PM
- 522 views
Steroids Won't Help If You're a Loser
by Miss Behavior in The Scorpion and the Frog
The more we study physiology and behavior across groups of animals, the more we find we have in common in the types of behaviors we express and the biological machinery of how our bodies influence what behaviors are expressed and when. But similarity does not mean the same. Sometimes seemingly small physiological differences can have big behavioral consequences. A snuggly California mouse pair. Photo from the Marler lab.A lone wire-walking white-footed mouse. Photo by the National Park Service.T........ Read more »
Fuxjager MJ, Montgomery JL, & Marler CA. (2011) Species differences in the winner effect disappear in response to post-victory testosterone manipulations. Proceedings. Biological sciences / The Royal Society, 278(1724), 3497-503. PMID: 21490015
Oyegbile TO, & Marler CA. (2005) Winning fights elevates testosterone levels in California mice and enhances future ability to win fights. Hormones and behavior, 48(3), 259-67. PMID: 15979073
- June 27, 2012
- 09:03 AM
- 384 views
Video Tip of the Week: The PSI SBKB’s New Content Hubs
In today’s tip I will feature the newly organized content hubs over at the Protein Structure Initiative’s Structural Biology Knowledgebase, or PSI SBKB. We do have a free, full-length tutorial on the PSI SBKB that we are in the process of updating, but I thought I’d just touch on one of the new updates to [...]... Read more »
Gifford LK, Carter LG, Gabanyi MJ, Berman HM, & Adams PD. (2012) The Protein Structure Initiative Structural Biology Knowledgebase Technology Portal: a structural biology web resource. Journal of structural and functional genomics, 13(2), 57-62. PMID: 22527514
Gabanyi MJ, Adams PD, Arnold K, Bordoli L, Carter LG, Flippen-Andersen J, Gifford L, Haas J, Kouranov A, McLaughlin WA.... (2011) The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods. Journal of structural and functional genomics, 12(2), 45-54. PMID: 21472436
Cormier CY, Park JG, Fiacco M, Steel J, Hunter P, Kramer J, Singla R, & LaBaer J. (2011) PSI:Biology-materials repository: a biologist's resource for protein expression plasmids. Journal of structural and functional genomics, 12(2), 55-62. PMID: 21360289
- June 17, 2012
- 05:31 PM
- 512 views
Totally Tropical Titan
by Invader Xan in Supernova Condensate
Our solar system is full of mysteries, and it seems the more we look, the more we find, and the less we can explain. Most recently, the puzzles of the martian methane and the beautifully lethal venusian clouds have been … Continue reading →... Read more »
C.P. McKay, & H.D. Smith. (2005) Possibilities for methanogenic life in liquid methane on the surface of Titan. Icarus, 274-276. DOI: 10.1016/j.icarus.2005.05.018
Giuseppe Mitri, Adam P. Showman, Jonathan I. Lunine, & Ralph D. Lorenz. (2007) Hydrocarbon lakes on Titan. Icarus, 385-394. DOI: 10.1016/j.icarus.2006.09.004
Francois Raulin. (2008) Astrobiology and Habitability of Titan. Space Sci Rev, 37-48. DOI: 10.1007/s11214-006-9133-7
Darrell F. Strobel. (2010) Molecular hydrogen in Titan's atmosphere: Implications of the measured tropospheric and thermospheric mole fractions. Icarus, 878-886. DOI: 10.1016/j.icarus.2010.03.003
- June 13, 2012
- 01:52 PM
- 615 views
The Age of Aquariums: Amazing Animal Watching Vacations Part 2
by Miss Behavior in The Scorpion and the Frog
Below the ocean’s surface is a world more mysterious than the dark side of the moon and with more animal diversity than the Amazon rainforest. Over 70% of our planet is covered in ocean, yet fully 95% of our oceans remain completely unexplored. But we do know that the habitats animals adapt to are more vast than the open ocean (In fact, many more animals are by the coasts than out in the open ocean). There are shallow sunlit coastal waters and deep dark ocean trenches, coral reefs, estuaries, ........ Read more »
GRAY, J. (1997) Marine biodiversity: patterns, threats and conservation needs. Biodiversity and Conservation, 6(1), 153-175. DOI: 10.1023/a:1018335901847
Orcutt, B., Sylvan, J., Knab, N., & Edwards, K. (2011) Microbial Ecology of the Dark Ocean above, at, and below the Seafloor. Microbiology and Molecular Biology Reviews, 75(2), 361-422. DOI: 10.1128/MMBR.00039-10
Zeppilli, D., Mea, M., Corinaldesi, C., & Danovaro, R. (2011) Mud volcanoes in the Mediterranean Sea are hot spots of exclusive meiobenthic species. Progress In Oceanography, 91(3), 260-272. DOI: 10.1016/j.pocean.2011.01.001
- June 12, 2012
- 06:10 PM
- 398 views
Toxic and toothsome: a tale of two wild Asteraceae
by aewills in A Bouquet From Mendel
Toxic Interloper: Not long ago, I planted a bunch of coriander/cilantro seeds in my back yard. When the seedlings emerged, I found not only cilantro, but also this: Senecio vulgaris, known as common groundsel to me, but also as Old-man-of-the-spring. … Continue reading →... Read more »
Wang, C., Li, Y., Gao, J., He, Y., Xiong, A., Yang, L., Cheng, X., Ma, Y., & Wang, Z. (2011) The comparative pharmacokinetics of two pyrrolizidine alkaloids, senecionine and adonifoline, and their main metabolites in rats after intravenous and oral administration by UPLC/ESIMS. Analytical and Bioanalytical Chemistry, 401(1), 275-287. DOI: 10.1007/s00216-011-5075-3
- June 6, 2012
- 12:29 PM
- 432 views
Etched in Bone: Uncovering information about immigrants to Rome
by Kristina Killgrove in Powered By Osteons
I just returned from Holland, where I spent a lovely few days talking to all manner of experts on ancient Rome during the Moving Romans conference and thanatouring Leiden's excellent Museum Boerhaave and the Rijksmuseum van Oudheden.
My own contribution to the conference was called "Etched in Bone," and I both summarized some of my recent research on identifying immigrants to Rome (which I've previously blogged about here, here, here, and here - whew!) and expanded on that work by including som........ Read more »
Montgomery, J., Evans, J.A., Chenery, S.R., Pashley, V., & Killgrove, K. (2010) 'Gleaming, white and deadly' : using lead to track human exposure and geographic origins in the Roman period in Britain. Journal of Roman Archaeology, 199-226. info:/
Turner BL, & Armelagos GJ. (2012) Diet, residential origin, and pathology at Machu Picchu, Peru. American journal of physical anthropology. PMID: 22639369
- June 6, 2012
- 09:35 AM
- 546 views
Interstellar Sleuths
by Invader Xan in Supernova Condensate
“Of course, this identification is simply wrong.” That one remark caused a subdued but audible commotion in the audience, and a handful of shocked responses to be posted on twitter. The remark in question had been made by Jacek Krełowski, … Continue reading →... Read more »
Harvey Liszt, Paule Sonnentrucker, Martin Cordiner, & Maryvonne Gerin. (2012) The abundance of C3H2 and other small hydrocarbons in the diffuse interstellar medium. ApJL. arXiv: 1206.0342v1
- June 4, 2012
- 11:54 AM
- 474 views
Awwww, Ain’t That Sweet?
by Amy Hendricksen in Promega Connections
There are many things that I love about summer…being out on the water, puttering around in my garden, and local festivals top the list. But the best, the absolute best, is the produce. I could (and have!) spent hours at the farmer’s market, admiring the myriad of colors and varietals laid out under crisp white [...]... Read more »
Tieman, D., Bliss, P., McIntyre, L., Blandon-Ubeda, A., Bies, D., Odabasi, A., Rodríguez, G., van der Knaap, E., Taylor, M., Goulet, C.... (2012) The Chemical Interactions Underlying Tomato Flavor Preferences. Current Biology. DOI: 10.1016/j.cub.2012.04.016
- June 3, 2012
- 12:01 PM
- 678 views
A Tale of Two Huxleys
by TheCellularScale in The Cellular Scale
Andrew Huxley is one of the founders of both modern electrophysiology and computational neuroscience, and is consequently a personal hero of mine. His recent (May 30, 2012) death inspired me to learn more about his life.Andrew Huxley (1917-2012)Andrew Huxley along with Alan Hodgkin discovered the mechanisms which governed the action potential in nerve cells. They inserted micro-electrodes into the squid giant axon and recorded the sodium and potassium currents which generated ........ Read more »
HODGKIN AL, & HUXLEY AF. (1952) A quantitative description of membrane current and its application to conduction and excitation in nerve. The Journal of physiology, 117(4), 500-44. PMID: 12991237
- May 29, 2012
- 03:22 PM
- 374 views
Using computer simulation to find hub proteins as biomarkers for human cancer
by Clay Clark in Biochem Blogs
Recently I posted a blog on using miRNA profiling as biomarkers for cancer. Protein profiling is another potential tool for hunting biomarkers. Traditional microarray data are based on the assumption that each individual protein contributes independently to clinical outcomes. … Continue reading →... Read more »
Chuang, H., Lee, E., Liu, Y., Lee, D., & Ideker, T. (2007) Network-based classification of breast cancer metastasis. Molecular Systems Biology. DOI: 10.1038/msb4100180
Li, C., & Li, H. (2008) Network-constrained regularization and variable selection for analysis of genomic data. Bioinformatics, 24(9), 1175-1182. DOI: 10.1093/bioinformatics/btn081
Chen, L., Xuan, J., Riggins, R., Clarke, R., & Wang, Y. (2011) Identifying cancer biomarkers by network-constrained support vector machines. BMC Systems Biology, 5(1), 161. DOI: 10.1186/1752-0509-5-161
- May 24, 2012
- 12:17 PM
- 312 views
Discovering underneath a “MudPit”
by Clay Clark in Biochem Blogs
What is referred to as “MudPit” here is not “a pit of mud” but a technique in the mass spectrometry field which stands for “multi-dimensional protein identification technology”, a very powerful approach that has been widely used since the … Continue reading →... Read more »
Washburn, M., Wolters, D., & Yates, J. (2001) Large-scale analysis of the yeast proteome via multidimensional protein identification technology. Nature Biotechnology, 19(3), 242-247. DOI: 10.1038/85686
Yang, F., Shen, Y., Camp, D., & Smith, R. (2012) High-pH reversed-phase chromatography with fraction concatenation for 2D proteomic analysis. Expert Review of Proteomics, 9(2), 129-134. DOI: 10.1586/epr.12.15
Tran, J., Zamdborg, L., Ahlf, D., Lee, J., Catherman, A., Durbin, K., Tipton, J., Vellaichamy, A., Kellie, J., Li, M.... (2011) Mapping intact protein isoforms in discovery mode using top-down proteomics. Nature, 480(7376), 254-258. DOI: 10.1038/nature10575
- May 24, 2012
- 11:15 AM
- 279 views
Clockworks: The Story of Drugs — Part 1
by xylph in xylem || phloem
In this installment, I will discuss why it is difficult to discover, design and develop a drug, in view of our current knowledge of physiology.With numerous, intertwined reactions happening, our body is a complex clockwork of biomachinery gears. What do you do, then, if some gears fail—that is, if you got sick? On one hand, it is a consolation that many gears are what biologists call 'redundant', which means that it's alright that a certain gear fails, because there are other gears that can ta........ Read more »
Eckert, D., & Kim, P. (2001) Mechanisms of Viral Membrane Fusion and Its Inhibition. Annual Review of Biochemistry, 70(1), 777-810. DOI: 10.1146/annurev.biochem.70.1.777
Welsch, M., Snyder, S., & Stockwell, B. (2010) Privileged scaffolds for library design and drug discovery. Current Opinion in Chemical Biology, 14(3), 347-361. DOI: 10.1016/j.cbpa.2010.02.018
Marusyk A, Almendro V, & Polyak K. (2012) Intra-tumour heterogeneity: a looking glass for cancer?. Nature reviews. Cancer, 12(5), 323-34. PMID: 22513401
- May 23, 2012
- 02:09 PM
- 617 views
Snakes Deceive to Get a Little Snuggle
by Miss Behavior in The Scorpion and the Frog
A lone red-sided garter snake. Photo by Tracy Langkilde.The red-sided garter snake is a small snake species with the largest and most northern distribution of all reptiles in North America. These northern ranges can get quite cold for any animal, let alone a reptile. Like most reptiles, they are ectotherms, meaning they regulate their body temperature largely by exchanging heat with their environment. If an animal gets almost all of its body heat from a cold environment, its body is also going t........ Read more »
Shine, R., Langkilde, T., & Mason, R. (2012) Facultative pheromonal mimicry in snakes: “she-males” attract courtship only when it is useful. Behavioral Ecology and Sociobiology, 66(5), 691-695. DOI: 10.1007/s00265-012-1317-4
Parker, M., & Mason, R. (2012) How to make a sexy snake: estrogen activation of female sex pheromone in male red-sided garter snakes. Journal of Experimental Biology, 215(5), 723-730. DOI: 10.1242/jeb.064923
Parker, M., & Mason, R. (2009) Low Temperature Dormancy Affects the Quantity and Quality of the Female Sexual Attractiveness Pheromone in Red-sided Garter Snakes. Journal of Chemical Ecology, 35(10), 1234-1241. DOI: 10.1007/s10886-009-9699-0
- May 20, 2012
- 03:52 PM
- 544 views
Energy Drinks: What’s the Big Deal?
by Dirk Hanson in Addiction Inbox
The sons of Red Bull are sporting record concentrations of caffeine.
Are energy drinks capable of pushing some people into caffeine-induced psychotic states? Some medical researchers think so, under the right set of conditions.
Red Bull, for all its iconic ferocity, is pretty tame, weighing in at approximately half a cup of coffee. Drinks like Monster Energy and Full Throttle push it up to 100-150, or the equivalent of a full cuppa joe, according to USDA figures at Talk About Coffee. That does........ Read more »
Rath, M. (2012) Energy drinks: What is all the hype? The dangers of energy drink consumption. Journal of the American Academy of Nurse Practitioners, 24(2), 70-76. DOI: 10.1111/j.1745-7599.2011.00689.x
- May 20, 2012
- 11:01 AM
- 536 views
Solution to ScFv to refolding
by SS in Scientific scrutiny
A comparison of two papers describing the separation of anti-TNF alpha ScFv from the soluble and insoluble fractions of the same bacterial supernatant.... Read more »
Sushma Krishnan, Vijayalakshmi Mookambeswaran A., Krishnan Venkataraman, & Satheeshkumar Padikara Kutty. (2011) Cloning, expression, purification and characterization of a single chain variable fragment specific to tumor necrosis factor alpha in Escherichia coli. Journal of Biotechnology, 156(4), 244. DOI: 10.1016/j.jbiotec.2011.06.039
Sushma Krishnan, Bilgimol Chuvappumkal Joseph, Vijayalakshmi Mookambeswaran A., & Satheeshkumar Padikara Kutty. (2012) Recovery of active anti TNF-α ScFv through matrix-assisted refolding of bacterial inclusion bodies using CIM monolithic support. Journal of Chromatography B, 93. DOI: 10.1016/j.jchromb.2012.02.011
- May 19, 2012
- 06:19 AM
- 610 views
Metal affects (enzyme) activity
by SS in Scientific scrutiny
A discussion of why attention should be paid to the choice of metal ions in metal ion chromatography.... Read more »
Kandukuri Sai Srikar, Noor Ayesha, Ranjini S. Shiva, & Vijayalakshmi M.A. (2012) Purification and characterization of catalase from sprouted black gram (Vigna mungo) seeds. Journal of Chromatography B, 54. DOI: 10.1016/j.jchromb.2012.01.029
Ajila, C., & Prasada Rao, U. (2009) Purification and characterization of black gram (Vigna mungo) husk peroxidase. Journal of Molecular Catalysis B: Enzymatic, 60(1-2), 36-44. DOI: 10.1016/j.molcatb.2009.03.014
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