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1.
8275 Accesses
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Are we training pit bulls to review our manuscripts?
Virginia Walbot Journal of Biology 2009, 8:24 (9 March 2009)
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Editor’s summary
Virginia Walbot accepts some of the blame for remorselessly negative reviewers, and suggests a training program for graduate students and post docs that will deliver a fairer assessment of manuscripts.
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2.
6697 Accesses
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Music, memory and emotion
Lutz Jäncke Journal of Biology 2008, 7:21 (8 August 2008)
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3.
6017 Accesses
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Open access to the scientific journal literature
Peter Suber Journal of Biology 2002, 1:3 (18 June 2002)
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4.
5424 Accesses
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What are journals for?
Miranda Robertson Journal of Biology 2009, 8:1 (27 January 2009)
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Editor’s summary
Journal of Biology launches a re-review opt-out experiment in response to widespread dissatisfaction with peer review, and publishes the first of two new regular features - a full review on the ribosome and a question-and-answer feature on systems biology.
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5.
4861 Accesses
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Top dogs: wolf domestication and wealth
Carlos A Driscoll, David W Macdonald Journal of Biology 2010, 9:10 (24 February 2010)
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Commenting on a phylogeographic analysis in BMC Biology that supports a Middle Eastern origin of small dogs, Driscoll and Macdonald speculate on the implications of wolf domestication and size reduction occurring at a time of transition between hunter-gatherer and sedentary societies.
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6.
4748 Accesses
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Growth control of the eukaryote cell: a systems biology study in yeast
Juan I Castrillo, Leo A Zeef, David C Hoyle, Nianshu Zhang, Andrew Hayes, David CJ Gardner, Michael J Cornell, June Petty, Luke Hakes, Leanne Wardleworth, Bharat Rash, Marie Brown, Warwick B Dunn, David Broadhurst, Kerry O'Donoghue, Svenja S Hester, Tom PJ Dunkley, Sarah R Hart, Neil Swainston, Peter Li, Simon J Gaskell, Norman W Paton, Kathryn S Lilley, Douglas B Kell, Stephen G Oliver Journal of Biology 2007, 6:4 (30 April 2007)
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Editor’s summary
The first comprehensive systems biology study on growth rate control in yeast integrates information from the transcriptome, proteome and metabolome to reveal how cell growth underlies key cellular and development processes.
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7.
4679 Accesses
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Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae
Teresa Reguly, Ashton Breitkreutz, Lorrie Boucher, Bobby-Joe Breitkreutz, Gary C Hon, Chad L Myers, Ainslie Parsons, Helena Friesen, Rose Oughtred, Amy Tong, Chris Stark, Yuen Ho, David Botstein, Brenda Andrews, Charles Boone, Olga G Troyanskya, Trey Ideker, Kara Dolinski, Nizar N Batada, Mike Tyers Journal of Biology 2006, 5:11 (8 June 2006)
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Editor’s summary
A new literature-based yeast database documents over 33,000 biological interactions, manually curated from the primary literature, and provides an invaluable resource to benchmark high-throughput methods in the study of complex networks.
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8.
4034 Accesses
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Conservation of core gene expression in vertebrate tissues
Esther T Chan, Gerald T Quon, Gordon Chua, Tomas Babak, Miles Trochesset, Ralph A Zirngibl, Jane Aubin, Michael JH Ratcliffe, Andrew Wilde, Michael Brudno, Quaid D Morris, Timothy R Hughes Journal of Biology 2009, 8:33 (16 April 2009)
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Editor’s summary
High conservation of tissue-specific expression is found across vertebrates yet there is a lack of conservation in common regulatory sequences/signatures.
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9.
3969 Accesses
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Systemic 5-fluorouracil treatment causes a syndrome of delayed myelin destruction in the central nervous system
Ruolan Han, Yin M Yang, Joerg Dietrich, Anne Luebke, Margot Mayer-Pröschel, Mark Noble Journal of Biology 2008, 7:12 (22 April 2008)
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Editor’s summary
The chemotherapy drug, 5-fluorouracil, causes delayed degeneration in the central nervous system of animals, a newly identified type of damage that helps explain the cognitive defects or `chemobrain` symptoms associated with cancer treatment.
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10.
3883 Accesses
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The mathematics of sexual attraction
José A Feijó Journal of Biology 2010, 9:18 (29 March 2010)
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11.
3717 Accesses
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Dynamic rerouting of the carbohydrate flux is key to counteracting oxidative stress
Markus Ralser, Mirjam M Wamelink, Axel Kowald, Birgit Gerisch, Gino Heeren, Eduard A Struys, Edda Klipp, Cornelis Jakobs, Michael Breitenbach, Hans Lehrach, Sylvia Krobitsch Journal of Biology 2007, 6:10 (21 December 2007)
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Editor’s summary
Yeast and C. elegans share a conserved cellular mechanism that counteracts the fatal consequences of oxidative stress by enabling the redirection of metabolic flux from glycolysis to the pentose phosphate pathway.
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12.
3553 Accesses
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The Drosophila Forkhead transcription factor FOXO mediates the reduction in cell number associated with reduced insulin signaling
Martin A Jünger, Felix Rintelen, Hugo Stocker, Jonathan D Wasserman, Mátyás Végh, Thomas Radimerski, Michael E Greenberg, Ernst Hafen Journal of Biology 2003, 2:20 (7 August 2003)
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13.
3418 Accesses
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Endothelial adherens junctions and the actin cytoskeleton: an 'infinity net'?
Maria Grazia Lampugnani Journal of Biology 2010, 9:16 (8 April 2010)
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14.
3141 Accesses
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Complexes between the LKB1 tumor suppressor, STRADα/β and MO25α/β are upstream kinases in the AMP-activated protein kinase cascade
Simon A Hawley, Jérôme Boudeau, Jennifer L Reid, Kirsty J Mustard, Lina Udd, Tomi P Mäkelä, Dario R Alessi, D Grahame Hardie Journal of Biology 2003, 2:28 (24 September 2003)
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15.
3049 Accesses
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High-resolution quantitative imaging of mammalian and bacterial cells using stable isotope mass spectrometry
Claude Lechene, Francois Hillion, Greg McMahon, Douglas Benson, Alan M Kleinfeld, J Patrick Kampf, Daniel Distel, Yvette Luyten, Joseph Bonventre, Dirk Hentschel, Kwon Park, Susumu Ito, Martin Schwartz, Gilles Benichou, Georges Slodzian Journal of Biology 2006, 5:20 (5 October 2006)
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Editor’s summary
For the first time it is possible to image and quantify at nanometer resolution biological samples labeled with stable isotopes, using multi-isotope imaging mass spectrometry, applicable to all fields of biomedical research.
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16.
3020 Accesses
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The origin and evolution of lactation
Anthony V Capuco, R Michael Akers Journal of Biology 2009, 8:37 (24 April 2009)
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Capuco and Akers review the biology of lactation and discuss a new report in Genome Biology that compares the bovine genome with six other mammalian genomes to study how lactation and its regulation evolved.
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17.
2953 Accesses
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Generalized immune activation as a direct result of activated CD4+ T cell killing
Rute Marques, Adam Williams, Urszula Eksmond, Andy Wullaert, Nigel Killeen, Manolis Pasparakis, Dimitris Kioussis, George Kassiotis Journal of Biology 2009, 8:93 (27 November 2009)
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Editor’s summary
HIV causes immunodeficiency by deleting activated CD4 T lymphocytes, but paradoxically also causes general immune activation. Kassiotis and colleagues have mimicked this effect by using genetic engineering to delete activated T cells in mice, and show that in the mice it is due to loss of regulatory T cells.
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18.
2854 Accesses
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The water flea Daphnia - a 'new' model system for ecology and evolution?
Angelika Stollewerk Journal of Biology 2010, 9:21 (13 January 2010)
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19.
2832 Accesses
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Parasite immunomodulation and polymorphisms of the immune system
Rick M Maizels Journal of Biology 2009, 8:62 (5 August 2009)
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Editor’s summary
Rick Maizels discusses a recent paper in BMC Biology on wild mammals that lend support to the hygiene hypothesis, and explains why genetic variants that reduce parasite-induced immunosuppression are associated with an increase in allergic reactions.
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20.
2790 Accesses
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CNS progenitor cells and oligodendrocytes are targets of chemotherapeutic agents in vitro and in vivo
Joerg Dietrich, Ruolan Han, Yin Yang, Margot Mayer-Pröschel, Mark Noble Journal of Biology 2006, 5:22 (30 November 2006)
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Editor’s summary
Chemotherapeutic agents are more toxic to cells of the central nervous system than to cancer cells when administered to mice and cultured cells, providing an explanation for adverse neurological effects of systemic chemotherapy.
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21.
2777 Accesses
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Q&A: Epistasis
Frederick P Roth, Howard D Lipshitz, Brenda J Andrews Journal of Biology 2009, 8:35 (22 May 2009)
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Editor’s summary
The term epistasis has at least three meanings in biology. Brenda Andrews and colleagues explain in Q&A format how in its classical sense, epistasis allows biological pathways to be defined.
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22.
2728 Accesses
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Apes, lice and prehistory
Robin A Weiss Journal of Biology 2009, 8:20 (10 February 2009)
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Editor’s summary
In a special issue to celebrate the bicentennial of Darwin's birth, Robin Weiss reviews recent speculations on human prehistory based on louse phylogeny, and adds his own on the origins of pubic hair.
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23.
2712 Accesses
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Acoel and platyhelminth models for stem-cell research
Alexandra E Bely, James M Sikes Journal of Biology 2010, 9:14 (16 February 2010)
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Editor’s summary
The bodies of platyhelminth and acoel worms are continually renewed from large pools of somatic stem cells. Bely and Sikes discuss their consequent attractiveness for stem cell research, and how recent studies, including one in BMC Developmental Biology, reveal aspects of the cellular dynamics and molecular basis of stem-cell function in these animals.
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24.
2687 Accesses
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Madm (Mlf1 adapter molecule) cooperates with Bunched A to promote growth in Drosophila
Silvia Gluderer, Erich Brunner, Markus Germann, Virginija Jovaisaite, Changqing Li, Cyrill A Rentsch, Ernst Hafen, Hugo Stocker Journal of Biology 2010, 9:9 (11 February 2010)
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Editor’s summary
Stocker and colleagues identify and analyze a growth-promoting complex in Drosophila, formed between the putative transcription factor BunA, for which human homologs can functionally substitute, and the adaptor protein Madm.
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25.
2624 Accesses
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The bacterial pathogen Listeria monocytogenes: an emerging model in prokaryotic transcriptomics
Pascale Cossart, Cristel Archambaud Journal of Biology 2009, 8:107 (30 December 2009)
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Cossart and Archambaud discuss the implications of the outcome of deep RNA sequencing used to probe the virulence toolkit of Listeria monocytogenes, reported in a recent paper in BMC Genomics.
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26.
2612 Accesses
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Evolution underground: shedding light on the diversification of subterranean insects
Carlos Juan, Brent C Emerson Journal of Biology 2010, 9:17 (11 March 2010)
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Juan and Emerson discuss the reconstruction of the molecular phylogeny of a large Mediterranean cave-dwelling beetle clade recently presented in BMC Evolutionary Biology, and the implications for the evolutionary origin of the beetle ancestor.
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27.
2569 Accesses
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Genome of a songbird unveiled
Raphael Pinaud Journal of Biology 2010, 9:19 (1 April 2010)
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Pinaud heralds the publication of the zebra finch genome, reviewing some of the most exciting findings of this pioneering effort and explaining how this songbird model offers unique insights into auditory learning, singing behaviour and other biological phenomena.
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28.
2558 Accesses
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Oxidative stress, thermogenesis and evolution of uncoupling proteins
Eduardo Rial, Rafael Zardoya Journal of Biology 2009, 8:58 (16 June 2009)
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29.
2547 Accesses
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The functional landscape of mouse gene expression
Wen Zhang, Quaid D Morris, Richard Chang, Ofer Shai, Malina A Bakowski, Nicholas Mitsakakis, Naveed Mohammad, Mark D Robinson, Ralph Zirngibl, Eszter Somogyi, Nancy Laurin, Eftekhar Eftekharpour, Eric Sat, Jörg Grigull, Qun Pan, Wen-Tao Peng, Nevan Krogan, Jack Greenblatt, Michael Fehlings, Derek van der Kooy, Jane Aubin, Benoit G Bruneau, Janet Rossant, Benjamin J Blencowe, Brendan J Frey, Timothy R Hughes Journal of Biology 2004, 3:21 (6 December 2004)
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Editor’s summary
Gene function in mammals can be quickly and reliably predicted using a quantitative analysis of tissue-specific patterns of RNA expression.
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30.
2545 Accesses
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The nature of cell-cycle checkpoints: facts and fallacies
Alexey Khodjakov, Conly L Rieder Journal of Biology 2009, 8:88 (16 November 2009)
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Editor’s summary
The development of the checkpoint concept was a landmark in the understanding of cell cycle control, but Alexey Khodjakov and Conly Rieder argue that it is widely misunderstood, to the detriment of progress in cell cycle research.
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31.
2536 Accesses
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Small-molecule modulators of Hedgehog signaling: identification and characterization of Smoothened agonists and antagonists
Maria Frank-Kamenetsky, Xiaoyan M Zhang, Steve Bottega, Oivin Guicherit, Hynek Wichterle, Henryk Dudek, David Bumcrot, Frank Y Wang, Simon Jones, Janine Shulok, Lee L Rubin, Jeffery A Porter Journal of Biology 2002, 1:10 (6 November 2002)
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Editor’s summary
Characterization of small-molecule agonists and antagonists of the Hedgehog signaling pathway reveals that these candidate therapeutics act at the level of the pathway activator Smoothened, which may normally be regulated by an endogenous small molecule.
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32.
2535 Accesses
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The hydrodynamics of dolphin drafting
Daniel Weihs Journal of Biology 2004, 3:8 (4 May 2004)
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Editor’s summary
Models of the hydrodynamic forces between two swimming dolphins show that baby dolphins keep up with their more powerful mothers by getting an almost energetically "free ride" in their slipstream.
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33.
2532 Accesses
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Compound developmental eye disorders following inactivation of TGFβ signaling in neural-crest stem cells
Lars M Ittner, Heiko Wurdak, Kerstin Schwerdtfeger, Thomas Kunz, Fabian Ille, Per Leveen, Tord A Hjalt, Ueli Suter, Stefan Karlsson, Farhad Hafezi, Walter Born, Lukas Sommer Journal of Biology 2005, 4:11 (14 December 2005)
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Editor’s summary
Important structures in developing mouse eyes originate from neural crest cells controlled by TGFbeta signals from the lens, providing insight into human conditions that results in glaucoma and blindness.
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34.
2479 Accesses
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Bridge helix and trigger loop perturbations generate superactive RNA polymerases
Lin Tan, Simone Wiesler, Dominika Trzaska, Hannah C Carney, Robert OJ Weinzierl Journal of Biology 2008, 7:40 (2 December 2008)
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Editor’s summary
Mutations targeted to key functional areas of RNA polymerases can generate superactive enzymes that suggest how conformational changes in specialized domains of the enzyme contribute to the catalytic cycle.
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35.
2468 Accesses
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ERK1 and ERK2 mitogen-activated protein kinases affect Ras-dependent cell signaling differentially
Chiara Vantaggiato, Ivan Formentini, Attilio Bondanza, Chiara Bonini, Luigi Naldini, Riccardo Brambilla Journal of Biology 2006, 5:14 (28 June 2006)
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Editor’s summary
The mitogen-activated protein kinases ERK1 and ERK2 have unexpectedly independent roles in normal and malignant Ras-dependent cell proliferation; ERK2 controls normal cell proliferation whereas ERK1 antagonizes ERK2 activity.
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36.
2434 Accesses
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Adaptations of proteins to cellular and subcellular pH
Bertrand Garcia-Moreno Journal of Biology 2009, 8:98 (2 December 2009)
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Editor’s summary
Protein function and stability are acutely sensitive to pH, which varies in different subcellular compartments. Garcia-Moreno discusses research recently reported in BMC Biology suggesting that adaptation to different compartments is reflected in charge distribution.
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37.
2403 Accesses
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Timing the first human migration into eastern Asia
Roscoe Stanyon, Marco Sazzini, Donata Luiselli Journal of Biology 2009, 8:18 (6 February 2009)
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38.
2400 Accesses
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Robust and specific inhibition of microRNAs in Caenorhabditis elegans
Samrat T Kundu, Frank J Slack Journal of Biology 2010, 9:20 (1 April 2010)
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Editor’s summary
Frank Slack and Samrat Kundu highlight a refinement of the antisense strategy used to inhibit miRNAs in C.elegans, published in Silence, with an adaptation that supports transmission through the germline, and combinatorial use to target several different miRNAs in developing tissues.
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39.
2384 Accesses
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Life and death as a T lymphocyte: from immune protection to HIV pathogenesis
Nienke Vrisekoop, Judith N Mandl, Ronald N Germain Journal of Biology 2009, 8:91 (27 November 2009)
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Editor’s summary
Vrisekekoop, Mandl and Germain discuss the consequences of deleting activated CD4 T cells both in HIV infected humans and in engineered mice described in a paper published in Journal of Biology, and how both the similarities and the differences may be instructive.
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40.
2361 Accesses
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Scale-eating cichlids: from hand(ed) to mouth
A Richard Palmer Journal of Biology 2010, 9:11 (24 February 2010)
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Editor’s summary
Palmer discusses recent studies, including one in BMC Biology, suggesting that mouth bending in scale-eating cichlids cannot be explained by frequency dependent selection alone, but that the behavior of the fish may amplify mouth asymmetry during growth.
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41.
2351 Accesses
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A functional genomic analysis of cell morphology using RNA interference
AA Kiger, B Baum, S Jones, MR Jones, A Coulson, C Echeverri, N Perrimon Journal of Biology 2003, 2:27 (1 October 2003)
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42.
2341 Accesses
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Targeting TNF-α for cancer therapy
Elizabeth R Burton, Steven K Libutti Journal of Biology 2009, 8:85 (23 October 2009)
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43.
2328 Accesses
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The gene complement of the ancestral bilaterian - was Urbilateria a monster?
David J Miller, Eldon E Ball Journal of Biology 2009, 8:89 (19 November 2009)
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Editor’s summary
Bilateral animals have selectively shed genes as they evolved from their hypothetical ancestor, Urbilateria. Miller and Ball review this genomic history and ask if a recent paper in BMC Evolutionary Biology points to an ancestral worm.
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44.
2326 Accesses
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Search for a 'Tree of Life' in the thicket of the phylogenetic forest
Pere Puigbò, Yuri I Wolf, Eugene V Koonin Journal of Biology 2009, 8:59 (13 July 2009)
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Editor’s summary
Koonin and colleagues, comparing a forest of 7000 phylogenetic trees, discern vertical inheritance even at the earliest stages of prokaryotic evolution, despite horizontal gene transfer, but the branching order of the earliest radiations may never be resolved.
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45.
2309 Accesses
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Why didn't Darwin discover Mendel's laws?
Jonathan C Howard Journal of Biology 2009, 8:15 (24 February 2009)
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Editor’s summary
In an opinion piece, Jonathan Howard suggests that Darwin failed to discover the laws of inheritance (Mendel’s laws) due to his focus on small quantitative variations as the raw material of evolution.
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46.
2305 Accesses
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Making progress in genetic kin recognition among vertebrates
Jane L Hurst, Robert J Beynon Journal of Biology 2010, 9:13 (17 February 2010)
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Editor’s summary
Highlighting recent research in BMC Evolutionary Biology that analyzes the scent profiles of ring-tailed lemurs in relation to their genetic distance, Hurst and Benyon discuss recent progress and remaining challenges in deciphering how vertebrates recognise kin by their smell.
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47.
2233 Accesses
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Dosage compensation is less effective in birds than in mammals
Yuichiro Itoh, Esther Melamed, Xia Yang, Kathy Kampf, Susanna Wang, Nadir Yehya, Atila Van Nas, Kirstin Replogle, Mark R Band, David F Clayton, Eric E Schadt, Aldons J Lusis, Arthur P Arnold Journal of Biology 2007, 6:2 (22 March 2007)
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Editor’s summary
Male:female ratios of gene expression in zebra finch and chicken reveal that birds, unlike mammals, have surprisingly ineffective sex-chromosome dosage compensation mechanisms resulting in an imbalance between autosomal and sex-linked genes.
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48.
2232 Accesses
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No better time to FRET: shedding light on host pathogen interactions
Richard D Hayward, Jon D Goguen, John M Leong Journal of Biology 2010, 9:12 (18 February 2010)
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Editor’s summary
Hayward and colleagues discuss the promise of fluorescence resonance energy transfer (FRET)-based techniques to study the spatio-temporal subversion of host cell signaling by pathogens, reviewing the few existing examples of this, which include a recent paper in BMC Biology, to illustrate the power of an approach that has been surprisingly under-exploited to date.
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49.
2182 Accesses
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Regulation of metabolism in Caenorhabditis elegans longevity
Marco Gallo, Donald L Riddle Journal of Biology 2010, 9:7 (10 February 2010)
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Editor’s summary
A metabolomic quest for universals in the control of lifespan recently reported in BMC Biology implicates branched-chain amino acid pools. Gallo and Riddle review the lessons from C.elegans in research on longevity, and discuss the implications of the metabolomic research.
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50.
2153 Accesses
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Astrocytes derived from glial-restricted precursors promote spinal cord repair
Jeannette E Davies, Carol Huang, Christoph Proschel, Mark Noble, Margot Mayer-Proschel, Stephen JA Davies Journal of Biology 2006, 5:7 (27 April 2006)
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Editor’s summary
Significantly better spinal cord repair in rats results from transplanting specific pre-differentiated cells, cultured to become immature neural-support cells, than from transplanting undifferentiated embryonic stem cells.
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