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Activating and inhibiting connections in biological network dynamics
Daniel McDonald, Laura Waterbury, Rob Knight, M D Betterton
Biology Direct 2008, 3:49 (4 December 2008)
[Abstract] [Provisional PDF]
Discovery notes
Functional insight into Maelstrom in the germline piRNA pathway: a unique domain homologous to the DnaQ-H 3'-5' exonuclease, its lineage-specific expansion/loss and evolutionarily active site switch
Dapeng Zhang, Huiling Xiong, Jufang Shan, Xuhua Xia, Vance L Trudeau
Biology Direct 2008, 3:48 (25 November 2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Hypothesis
On the brink between extinction and persistence
Cino Pertoldi, Lars A Bach, Volker Loeschcke
Biology Direct 2008, 3:47 (19 November 2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Hypothesis
Exon definition as a potential negative force against intron losses in evolution
Deng-Ke Niu
Biology Direct 2008, 3:46 (13 November 2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Discovery notes
Unraveling the biochemistry and provenance of pupylation: a prokaryotic analog of ubiquitination
Lakshminarayan M Iyer, AM Burroughs, L Aravind
Biology Direct 2008, 3:45 (3 November 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Discovery notes
Synaptic enrichment of microRNAs in adult mouse forebrain is related to structural features of their precursors
Neil R Smalheiser
Biology Direct 2008, 3:44 (29 October 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Research
Did RNA editing in plant organellar genomes originate under natural selection or through genetic drift?
Richard W Jobson, Yin-Long Qiu
Biology Direct 2008, 3:43 (21 October 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Hypothesis
A new model defines the minimal set of polymorphism in HLA-DQ and -DR that determines susceptibility and resistance to autoimmune diabetes
Christian S Parry, Bernard R Brooks
Biology Direct 2008, 3:42 (14 October 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Discovery notes
Transduplication resulted in the incorporation of two protein-coding sequences into the Turmoil-1 transposable element of C. elegans
Noa Sela, Adi Stern, Wojciech Makalowski, Tal Pupko, Gil Ast
Biology Direct 2008, 3:41 (8 October 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Research
Comparable contributions of structural-functional constraints and expression level to the rate of protein sequence evolution
Maxim Y Wolf, Yuri I Wolf, Eugene V Koonin
Biology Direct 2008, 3:40 (7 October 2008)
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Discovery notes
A new family of polymerases related to superfamily A DNA polymerases and T7-like DNA-dependent RNA polymerases
Lakshminarayan M Iyer, Saraswathi Abhiman, L Aravind
Biology Direct 2008, 3:39 (4 October 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Research
CAIcal: A combined set of tools to assess codon usage adaptation
Pere Puigbò, Ignacio G Bravo, Santiago Garcia-Vallve
Biology Direct 2008, 3:38 (16 September 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Hypothesis
An extension of the coevolution theory of the origin of the genetic code
Massimo Di Giulio
Biology Direct 2008, 3:37 (5 September 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
Research
Same-strand overlapping genes in bacteria: compositional determinants of phase bias
Niv Sabath, Dan Graur, Giddy Landan
Biology Direct 2008, 3:36 (21 August 2008)
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Research
A nitty-gritty aspect of correlation and network inference from gene expression data
Lev B Klebanov, Andrei Yu Yakovlev
Biology Direct 2008, 3:35 (20 August 2008)
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Research
Critical role for BIM in T cell receptor restimulation-induced death
Andrew L Snow, João B Oliveira, Lixin Zheng, Janet K Dale, Thomas A Fleisher, Michael J Lenardo
Biology Direct 2008, 3:34 (20 August 2008)
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Research
The evolution of strand preference in simulated RNA replicators with strand displacement: implications for the origin of transcription
Nobuto Takeuchi, Laura Salazar, Anthony M Poole, Paulien Hogeweg
Biology Direct 2008, 3:33 (11 August 2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Discovery notes
A highly conserved family of inactivated archaeal B family DNA polymerases
Igor B Rogozin, Kira S Makarova, Youri I Pavlov, Eugene V Koonin
Biology Direct 2008, 3:32 (6 August 2008)
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Research
Origin of the nucleus and Ran-dependent transport to safeguard ribosome biogenesis in a chimeric cell
Gáspár Jékely
Biology Direct 2008, 3:31 (24 July 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles] [F1000 Biology]
Discovery notes
Accumulation of GC donor splice signals in mammals
Alexander Churbanov, Stephen Winters-Hilt, Eugene V Koonin, Igor B Rogozin
Biology Direct 2008, 3:30 (9 July 2008)
[Abstract] [Full Text] [PDF] [PubMed] [Related articles]
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