What
Makes A Man
Different From A Mouse
(Alonso and Wilkins
2005; Tsirigos and
Rigoutsos 2008; Hancock, Mallon et
al. 2009; van der Kuyl,
Cornelissen et al.
2010)
Regulatory networks
(Ferrigno, Virolle
et al. 2001; Druker, Bruxner et
al. 2004; Peaston, Evsikov et
al. 2004; von Sternberg and
Shapiro 2005; Sanges, Kalmar et
al. 2006; Watanabe, Takeda et
al. 2006; Horie, Saito et al.
2007; Liang and Li 2007; Odom, Dowell et al.
2007; Santangelo, de
Souza et al. 2007; Sela, Mersch et al.
2007; Guan, Myers et al.
2008; L'Hote, Serres et
al. 2008; Smith, Sanchez et
al. 2008; Tam, Aravin et al.
2008; Benazet,
Bischofberger et al. 2009; Visel, Rubin et al.
2009; Wang, Zhao et al.
2009; Jaeger, Chan et al.
2010; Ponicsan, Kugel et
al. 2010)
“Focusing
on regulatory
motifs overrepresented at specific locations within or near the
promoter, we
find that a surprisingly large number of cis-regulatory elements
have been
subject to coordinated genome-wide modifications during
vertebrate evolution,
such that the motif frequency changes on a single branch of
vertebrate
phylogeny. This was found to be the case even between closely
related mammal
species, with nearly a third of all location-specific consensus
motifs
exhibiting significant modifications within the human or mouse
lineage since
their divergence.” (Yokoyama, Thorne et
al. 2011)
Epigenetic regulation
(Barbot, Dupressoir
et al. 2002; Schutt, Florl et
al. 2003; Martens, O'Sullivan
et al. 2005; Hajkova, Ancelin et
al. 2008; Kalantry,
Purushothaman et al. 2009; Soshnikova and
Duboule 2009; Namekawa, Payer et
al. 2010; Popp, Dean et al.
2010; Clerc and Avner
2011; Rebollo, Karimi et
al. 2011)
Embryonic development
(McLaren and Michie
1958; Alonso and Wilkins
2005; Watanabe, Takeda et
al. 2006; Odom, Dowell et al.
2007; Sekita, Wagatsuma
et al. 2008; Tam, Aravin et al.
2008; Albert and Peters
2009; Benazet,
Bischofberger et al. 2009; De Felici, Farini
et al. 2009; Ahmed, Dehghani et
al. 2010; Li, Zheng et al.
2010; Morris 2011)
Chromosome structure and genome
architecture
(Waterston,
Lindblad-Toh et al. 2002; Young, Friedman et
al. 2002; Armengol, Pujana et
al. 2003; Pevzner and Tesler
2003; Bourque, Pevzner et
al. 2004; Kauppi, Jasin et
al. 2007; Lunyak, Prefontaine
et al. 2007; Sakai, Koyanagi et
al. 2007; Sengupta, Camps et
al. 2008; She, Cheng et al.
2008; Parvanov, Ng et al.
2009; Getun, Wu et al.
2010; Wang, Dong et al.
2010; Wu, Getun et al.
2010; Smagulova,
Gregoretti et al. 2011)
Repetitive and mobile elements
(DeBerardinis,
Goodier et al. 1998; Gilbert and Labuda
2000; Ferrigno, Virolle
et al. 2001; Silva, Shabalina et
al. 2003; Druker, Bruxner et
al. 2004; Peaston, Evsikov et
al. 2004; DeCerbo and
Carmichael 2005; Jurka, Kohany et
al. 2005; Krull, Brosius et
al. 2005; von Sternberg and
Shapiro 2005; Watanabe, Takeda et
al. 2006; Horie, Saito et al.
2007; Lunyak, Prefontaine
et al. 2007; Sakai, Koyanagi et
al. 2007; Santangelo, de
Souza et al. 2007; Sela, Mersch et al.
2007; Veniaminova,
Vassetzky et al. 2007; Sasaki, Nishihara
et al. 2008; Sekita, Wagatsuma
et al. 2008; Smith, Sanchez et
al. 2008; Tam, Aravin et al.
2008; Hutnick, Huang et
al. 2010; Kozak 2010; Ponicsan, Kugel et
al. 2010; Wang, Dong et al.
2010; Yan, Liu et al.
2010; Rebollo, Karimi et
al. 2011)
Population biology and hybridization
(Schutt, Florl et
al. 2003; L'Hote, Serres et
al. 2008; Bimova, Macholan et
al. 2011)
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