Volume 5, issue 1, December 2010
68 articles in this issue
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Evolution of gene regulation of pluripotency - the case for wiki tracks at genome browsers
Authors
- Georg Fuellen
- Stephan Struckmann
- Content type: Research
- Open Access
- Published: 29 December 2010
- Article: 67
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Bayesian classification of residues associated with protein functional divergence: Arf and Arf-like GTPases
Authors
- Andrew F Neuwald
- Content type: Research
- Open Access
- Published: 03 December 2010
- Article: 66
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The scenario on the origin of translation in the RNA world: in principle of replication parsimony
Authors
- Wentao Ma
- Content type: Hypothesis
- Open Access
- Published: 27 November 2010
- Article: 65
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The common ancestry of life
Authors
- Eugene V Koonin
- Yuri I Wolf
- Content type: Comment
- Open Access
- Published: 18 November 2010
- Article: 64
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Modeling compositional dynamics based on GC and purine contents of protein-coding sequences
Authors
- Zhang Zhang
- Jun Yu
- Content type: Research
- Open Access
- Published: 08 November 2010
- Article: 63
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How many antiviral small interfering RNAs may be encoded by the mammalian genomes?
Authors (first, second and last of 4)
- Anastasia Zabolotneva
- Victor Tkachev
- Anton Buzdin
- Content type: Hypothesis
- Open Access
- Published: 08 November 2010
- Article: 62
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Proteomic changes associated with deletion of the Magnaporthe oryzae conidial morphology-regulating gene COM1
Authors
- Vijai Bhadauria
- Li-Xia Wang
- You-Liang Peng
- Content type: Research
- Open Access
- Published: 02 November 2010
- Article: 61
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Riboswitches as hormone receptors: hypothetical cytokinin-binding riboswitches in Arabidopsis thaliana
Authors
- Jeremy Grojean
- Brian Downes
- Content type: Hypothesis
- Open Access
- Published: 20 October 2010
- Article: 60
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The calculation of information and organismal complexity
Authors
- Yun Jiang
- Cunshuan Xu
- Content type: Research
- Open Access
- Published: 12 October 2010
- Article: 59
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Application of computational approaches to study signalling networks of nuclear and Tyrosine kinase receptors
Authors
- Mouna Choura
- Ahmed Rebaï
- Content type: Research
- Open Access
- Published: 11 October 2010
- Article: 58
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The origin of Eastern European Jews revealed by autosomal, sex chromosomal and mtDNA polymorphisms
Authors
- Avshalom Zoossmann-Diskin
- Content type: Research
- Open Access
- Published: 06 October 2010
- Article: 57
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Relating underrepresented genomic DNA patterns and tiRNAs: the rule behind the observation and beyond
Authors (first, second and last of 4)
- Miklos Cserzo
- Gabor Turu
- Laszlo Hunyady
- Content type: Research
- Open Access
- Published: 22 September 2010
- Article: 56
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The ancient function of RB-E2F Pathway: insights from its evolutionary history
Authors (first, second and last of 7)
- Lihuan Cao
- Bo Peng
- Long Yu
- Content type: Research
- Open Access
- Published: 20 September 2010
- Article: 55
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Asymmetric and non-uniform evolution of recently duplicated human genes
Authors (first, second and last of 4)
- Alexander Y Panchin
- Mikhail S Gelfand
- Irena I Artamonova
- Content type: Research
- Open Access
- Published: 08 September 2010
- Article: 54
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Uniting sex and eukaryote origins in an emerging oxygenic world
Authors
- Jeferson Gross
- Debashish Bhattacharya
- Content type: Hypothesis
- Open Access
- Published: 23 August 2010
- Article: 53
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Encoding the states of interacting proteins to facilitate biological pathways reconstruction
Authors
- Alberto Termanini
- Paolo Tieri
- Claudio Franceschi
- Content type: Research
- Open Access
- Published: 13 August 2010
- Article: 52
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Measuring gene expression divergence: the distance to keep
Authors
- Galina Glazko
- Arcady Mushegian
- Content type: Research
- Open Access
- Published: 06 August 2010
- Article: 51
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A kinetic model of TBP auto-regulation exhibits bistability
Authors (first, second and last of 5)
- Sucheta A Gokhale
- Reema Roshan
- Chetan J Gadgil
- Content type: Research
- Open Access
- Published: 05 August 2010
- Article: 50
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Phylogenetic and regulatory region analysis of Wnt5 genes reveals conservation of a regulatory module with putative implication in pancreas development
Authors
- Maria Kapasa
- Stilianos Arhondakis
- Sophia Kossida
- Content type: Research
- Open Access
- Published: 04 August 2010
- Article: 49
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Predicted class-I aminoacyl tRNA synthetase-like proteins in non-ribosomal peptide synthesis
Authors
- L Aravind
- Robson F de Souza
- Lakshminarayan M Iyer
- Content type: Discovery notes
- Open Access
- Published: 02 August 2010
- Article: 48
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Some considerations for analyzing biodiversity using integrative metagenomics and gene networks
Authors (first, second and last of 7)
- Lucie Bittner
- Sébastien Halary
- Eric Bapteste
- Content type: Hypothesis
- Open Access
- Published: 30 July 2010
- Article: 47
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The evolutionary rate variation among genes of HOG-signaling pathway in yeast genomes
Authors (first, second and last of 6)
- Xuechang Wu
- Xiaoqin Chi
- Yudong Li
- Content type: Research
- Open Access
- Published: 10 July 2010
- Article: 46
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Opportunities and challenges for digital morphology
Authors (first, second and last of 6)
- Alexander Ziegler
- Malte Ogurreck
- Andreas Ziegler
- Content type: Comment
- Open Access
- Published: 06 July 2010
- Article: 45
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Save the tree of life or get lost in the woods
Authors
- Ruben E Valas
- Philip E Bourne
- Content type: Research
- Open Access
- Published: 01 July 2010
- Article: 44
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Presence of a classical RRM-fold palm domain in Thg1-type 3'- 5'nucleic acid polymerases and the origin of the GGDEF and CRISPR polymerase domains
Authors
- Vivek Anantharaman
- Lakshminarayan M Iyer
- L Aravind
- Content type: Discovery notes
- Open Access
- Published: 30 June 2010
- Article: 43
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Mitochondrial DNA, chloroplast DNA and the origins of development in eukaryotic organisms
Authors
- Arnold J Bendich
- Content type: Hypothesis
- Open Access
- Published: 29 June 2010
- Article: 42
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An age-dependent branching process model for the analysis of CFSE-labeling experiments
Authors
- Ollivier Hyrien
- Rui Chen
- Martin S Zand
- Content type: Research
- Open Access
- Published: 22 June 2010
- Article: 41
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Co-lethality studied as an asset against viral drug escape: the HIV protease case
Authors (first, second and last of 5)
- Sophie Brouillet
- Thomas Valere
- Anne Vanet
- Content type: Research
- Open Access
- Published: 17 June 2010
- Article: 40
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Undetected antisense tRNAs in mitochondrial genomes?
Authors
- Hervé Seligmann
- Content type: Research
- Open Access
- Published: 16 June 2010
- Article: 39
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Spontaneous chiral symmetry breaking in early molecular networks
Authors
- Ran Kafri
- Omer Markovitch
- Doron Lancet
- Content type: Research
- Open Access
- Published: 27 May 2010
- Article: 38
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Genome factor and gene pleiotropy hypotheses in protein evolution
Authors
- Yanwu Zeng
- Xun Gu
- Content type: Hypothesis
- Open Access
- Published: 24 May 2010
- Article: 37
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GTPases and the origin of the ribosome
Authors
- Hyman Hartman
- Temple F Smith
- Content type: Research
- Open Access
- Published: 20 May 2010
- Article: 36
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Selection for the compactness of highly expressed genes in Gallus gallus
Authors (first, second and last of 7)
- You S Rao
- Zhang F Wang
- Xi Q Zhang
- Content type: Research
- Open Access
- Published: 14 May 2010
- Article: 35
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Lack of conservation of bacterial type promoters in plastids of Streptophyta
Authors
- Vassily A Lyubetsky
- Lev I Rubanov
- Alexandr V Seliverstov
- Content type: Discovery notes
- Open Access
- Published: 10 May 2010
- Article: 34
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Two new families of the FtsZ-tubulin protein superfamily implicated in membrane remodeling in diverse bacteria and archaea
Authors
- Kira S Makarova
- Eugene V Koonin
- Content type: Discovery notes
- Open Access
- Published: 07 May 2010
- Article: 33
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Modularity and anti-modularity in networks with arbitrary degree distribution
Authors
- Arend Hintze
- Christoph Adami
- Content type: Research
- Open Access
- Published: 06 May 2010
- Article: 32
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Non-homologous isofunctional enzymes: A systematic analysis of alternative solutions in enzyme evolution
Authors (first, second and last of 4)
- Marina V Omelchenko
- Michael Y Galperin
- Eugene V Koonin
- Content type: Research
- Open Access
- Published: 30 April 2010
- Article: 31
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Locality versus globality in bacterial signalling: can local communication stabilize bacterial communities?
Authors (first, second and last of 5)
- Vittorio Venturi
- Ádám Kerényi
- Sándor Pongor
- Content type: Hypothesis
- Open Access
- Published: 27 April 2010
- Article: 30
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Evolution and cancer: a mathematical biology approach
Authors
- Marek Kimmel
- Content type: Editorial
- Open Access
- Published: 20 April 2010
- Article: 29
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A mathematical model of bone remodeling dynamics for normal bone cell populations and myeloma bone disease
Authors (first, second and last of 4)
- Bruce P Ayati
- Claire M Edwards
- John P Wikswo
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 28
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Oscillatory dynamics in a model of vascular tumour growth - implications for chemotherapy
Authors (first, second and last of 4)
- IJ Stamper
- MR Owen
- HM Byrne
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 27
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A new stochastic and state space model of human colon cancer incorporating multiple pathways
Authors
- Wai Y Tan
- Xiao W Yan
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 26
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A theoretical quantitative model for evolution of cancer chemotherapy resistance
Authors
- Ariosto S Silva
- Robert A Gatenby
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 25
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The evolutionary impact of androgen levels on prostate cancer in a multi-scale mathematical model
Authors
- Steffen E Eikenberry
- John D Nagy
- Yang Kuang
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 24
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Tumor morphological evolution: directed migration and gain and loss of the self-metastatic phenotype
Authors
- Heiko Enderling
- Lynn Hlatky
- Philip Hahnfeldt
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 23
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Episodic, transient systemic acidosis delays evolution of the malignant phenotype: Possible mechanism for cancer prevention by increased physical activity
Authors
- Kieran Smallbone
- Philip K Maini
- Robert A Gatenby
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 22
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Selection in spatial stochastic models of cancer: Migration as a key modulator of fitness
Authors (first, second and last of 4)
- Craig J Thalhauser
- John S Lowengrub
- Natalia L Komarova
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 21
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Disruption of a Quorum Sensing mechanism triggers tumorigenesis: a simple discrete model corroborated by experiments in mammary cancer stem cells
Authors (first, second and last of 7)
- Zvia Agur
- Yuri Kogan
- Robert B Clarke
- Content type: Research
- Open Access
- Published: 20 April 2010
- Article: 20
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Cancer models, genomic instability and somatic cellular Darwinian evolution
Authors
- Mark P Little
- Content type: Review
- Open Access
- Published: 20 April 2010
- Article: 19
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