-
1
-
-
0036905397
-
What is complexity?
-
Adami C. 2002. What is complexity? Bioessays 24:1085-1094.
-
(2002)
Bioessays
, vol.24
, pp. 1085-1094
-
-
Adami, C.1
-
2
-
-
0016355478
-
A new look at the statistical model identification. Automatic Control
-
Akaike H. 1974. A new look at the statistical model identification. Automatic Control IEEE Trans. 19:716-723.
-
(1974)
IEEE Trans.
, vol.19
, pp. 716-723
-
-
Akaike, H.1
-
4
-
-
0030874420
-
Size and complexity among multicellular organisms
-
Bell G, Mooers AO. 1997. Size and complexity among multicellular organisms. Biol J Linn Soc. 60:345-363.
-
(1997)
Biol J Linn Soc.
, vol.60
, pp. 345-363
-
-
Bell, G.1
Mooers, A.O.2
-
5
-
-
0036021702
-
Expansion of genome coding regions by acquisition of new genes
-
Betran E, Long M. 2002. Expansion of genome coding regions by acquisition of new genes. Genetica 115:65-80.
-
(2002)
Genetica
, vol.115
, pp. 65-80
-
-
Betran, E.1
Long, M.2
-
6
-
-
0028940587
-
Gene number, noise reduction and biological complexity
-
Bird AP. 1995. Gene number, noise reduction and biological complexity. Trends Genet. 11:94-100.
-
(1995)
Trends Genet.
, vol.11
, pp. 94-100
-
-
Bird, A.P.1
-
8
-
-
0036338127
-
Alternative splicing and genome complexity
-
Brett D, Pospisil H, Valcarcel J, Reich J, Bork P. 2002. Alternative splicing and genome complexity. Nat Genet. 30:29-30.
-
(2002)
Nat Genet.
, vol.30
, pp. 29-30
-
-
Brett, D.1
Pospisil, H.2
Valcarcel, J.3
Reich, J.4
Bork, P.5
-
9
-
-
84862992463
-
Tissue-specific splicing of disordered segments that embed binding motifs rewires protein interaction networks
-
Buljan M, Chalancon G, Eustermann S, Wagner GP, Fuxreiter M, Bateman A, Babu MM. 2012. Tissue-specific splicing of disordered segments that embed binding motifs rewires protein interaction networks. Mol Cell. 46:871-883.
-
(2012)
Mol Cell.
, vol.46
, pp. 871-883
-
-
Buljan, M.1
Chalancon, G.2
Eustermann, S.3
Wagner, G.P.4
Fuxreiter, M.5
Bateman, A.6
Babu, M.M.7
-
10
-
-
67650511671
-
Comprehensive splicing graph analysis of alternative splicing patterns in chicken, compared to human and mouse
-
Chacko E, Ranganathan S. 2009. Comprehensive splicing graph analysis of alternative splicing patterns in chicken, compared to human and mouse. BMC Genomics 10:S5.
-
(2009)
BMC Genomics
, vol.10
-
-
Chacko, E.1
Ranganathan, S.2
-
11
-
-
80052025744
-
The plausible reason why the length of 5' untranslated region is unrelated to organismal complexity
-
Chen CH, Lin HY, Pan CL, Chen FC. 2011. The plausible reason why the length of 5' untranslated region is unrelated to organismal complexity. BMC Res Notes. 4:312.
-
(2011)
BMC Res Notes.
, vol.4
, pp. 312
-
-
Chen, C.H.1
Lin, H.Y.2
Pan, C.L.3
Chen, F.C.4
-
12
-
-
84881530250
-
Alternative splicing: A potential source of functional innovation in the eukaryotic genome
-
Chen L, Tovar-Corona JM, Urrutia AO. 2012. Alternative splicing: a potential source of functional innovation in the eukaryotic genome. Int J Evol Biol. 2012:10.
-
(2012)
Int J Evol Biol. 2012
, pp. 10
-
-
Chen, L.1
Tovar-Corona, J.M.2
Urrutia, A.O.3
-
13
-
-
67650895858
-
Global prediction of tissue-specific gene expression and contextdependent gene networks in Caenorhabditis elegans
-
Chikina MD, Huttenhower C, Murphy CT, Troyanskaya OG. 2009. Global prediction of tissue-specific gene expression and contextdependent gene networks in Caenorhabditis elegans. PLoS Comput Biol. 5:e1000417.
-
(2009)
PLoS Comput Biol.
, vol.5
-
-
Chikina, M.D.1
Huttenhower, C.2
Murphy, C.T.3
Troyanskaya, O.G.4
-
14
-
-
0035895513
-
What if there are only 30, 000 human genes?
-
Claverie J-M. 2001. What if there are only 30,000 human genes? Science 291:1255-1257.
-
(2001)
Science
, vol.291
, pp. 1255-1257
-
-
Claverie, J.-M.1
-
15
-
-
26444603772
-
Two rounds of whole genome duplication in the ancestral vertebrate
-
Dehal P, Boore JL. 2005. Two rounds of whole genome duplication in the ancestral vertebrate. PLoS Biol. 3:e314.
-
(2005)
PLoS Biol.
, vol.3
-
-
Dehal, P.1
Boore, J.L.2
-
16
-
-
33644536713
-
Tunicates and not cephalochordates are the closest living relatives of vertebrates
-
Delsuc F, Brinkmann H, Chourrout D, Philippe H. 2006. Tunicates and not cephalochordates are the closest living relatives of vertebrates. Nature 439:965-968.
-
(2006)
Nature
, vol.439
, pp. 965-968
-
-
Delsuc, F.1
Brinkmann, H.2
Chourrout, D.3
Philippe, H.4
-
17
-
-
52249085709
-
The unfoldomics decade: An update on intrinsically disordered proteins
-
Dunker AK, Oldfield CJ, Meng J, Romero P, Yang JY, Chen JW, Vacic V, Obradovic Z, Uversky VN. 2008. The unfoldomics decade: an update on intrinsically disordered proteins. BMC Genomics 9(Suppl 2):S1.
-
(2008)
BMC Genomics
, vol.9
, Issue.SUPPL. 2
-
-
Dunker, A.K.1
Oldfield, C.J.2
Meng, J.3
Romero, P.4
Yang, J.Y.5
Chen, J.W.6
Vacic, V.7
Obradovic, Z.8
Uversky, V.N.9
-
18
-
-
67651052246
-
Early origin of the bilaterian developmental toolkit
-
Erwin DH. 2009. Early origin of the bilaterian developmental toolkit. Philos Trans R Soc Lond B Biol Sci. 364:2253-2261.
-
(2009)
Philos Trans R Soc Lond B Biol Sci.
, vol.364
, pp. 2253-2261
-
-
Erwin, D.H.1
-
19
-
-
0022203256
-
Phylogenies and the comparative method
-
Felsenstein J. 1985. Phylogenies and the comparative method. Am Nat. 125:1-15.
-
(1985)
Am Nat.
, vol.125
, pp. 1-15
-
-
Felsenstein, J.1
-
21
-
-
79959931985
-
HMMER web server: Interactive sequence similarity searching
-
Finn RD, Clements J, Eddy SR. 2011. HMMER web server: interactive sequence similarity searching. Nucleic Acids Res. 39:W29-W37.
-
(2011)
Nucleic Acids Res.
, vol.39
-
-
Finn, R.D.1
Clements, J.2
Eddy, S.R.3
-
22
-
-
38549146894
-
The Pfam protein families database
-
Finn RD, Tate J, Mistry J, Coggill PC, Sammut SJ, Hotz H-R, Ceric G, Forslund K, Eddy SR, Sonnhammer ELL, et al. 2008. The Pfam protein families database. Nucleic Acids Res. 36:D281-D288.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Finn, R.D.1
Tate, J.2
Mistry, J.3
Coggill, P.C.4
Sammut, S.J.5
Hotz, H.-R.6
Ceric, G.7
Forslund, K.8
Eddy, S.R.9
Sonnhammer, E.L.L.10
-
23
-
-
54949135764
-
Splice-mediated variants of proteins (SpliVaP)-data and characterization of changes in signatures among protein isoforms due to alternative splicing
-
Floris M, Orsini M, Thanaraj T. 2008. Splice-mediated variants of proteins (SpliVaP)-data and characterization of changes in signatures among protein isoforms due to alternative splicing. BMC Genomics 9:453.
-
(2008)
BMC Genomics
, vol.9
, pp. 453
-
-
Floris, M.1
Orsini, M.2
Thanaraj, T.3
-
24
-
-
84876855375
-
Reference-free population genomics from next-generation transcriptome data and the vertebrate-invertebrate gap
-
Gayral P, Melo-Ferreira J, Glémin S, Bierne N, Carneiro M, Nabholz B, Lourenco JM, Alves PC, Ballenghien M, Faivre N, et al. 2013. Reference-free population genomics from next-generation transcriptome data and the vertebrate-invertebrate gap. PLoS Genet. 9:e1003457.
-
(2013)
PLoS Genet.
, vol.9
-
-
Gayral, P.1
Melo-Ferreira, J.2
Glémin, S.3
Bierne, N.4
Carneiro, M.5
Nabholz, B.6
Lourenco, J.M.7
Alves, P.C.8
Ballenghien, M.9
Faivre, N.10
-
25
-
-
0035252410
-
Alternative splicing: Increasing diversity in the proteomic world
-
Graveley BR. 2001. Alternative splicing: increasing diversity in the proteomic world. Trends Genet. 17:100-107.
-
(2001)
Trends Genet.
, vol.17
, pp. 100-107
-
-
Graveley, B.R.1
-
26
-
-
0035992053
-
The g-value paradox
-
Hahn MW, Wray GA. 2002. The g-value paradox. Evol Dev. 4:73-75.
-
(2002)
Evol Dev.
, vol.4
, pp. 73-75
-
-
Hahn, M.W.1
Wray, G.A.2
-
27
-
-
0036493224
-
A question of size: The eukaryotic proteome and the problems in defining it
-
Harrison PM, Kumar A, Lang N, Snyder M, GersteinM. 2002. A question of size: the eukaryotic proteome and the problems in defining it. Nucleic Acids Res. 30:1083-1090.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 1083-1090
-
-
Harrison, P.M.1
Kumar, A.2
Lang, N.3
Snyder, M.4
Gerstein, M.5
-
28
-
-
33646566815
-
Proceedings of the SMBE tri-national young investigators' workshop 2005 Mutation rate and the cost of complexity
-
Haygood R. 2006. Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. Mutation rate and the cost of complexity. Mol Biol Evol. 23:957-963.
-
(2006)
Mol Biol Evol.
, vol.23
, pp. 957-963
-
-
Haygood, R.1
-
29
-
-
2942568227
-
A molecular timescale of eukaryote evolution and the rise of complex multicellular life
-
Hedges S, Blair J, Venturi M, Shoe J. 2004. A molecular timescale of eukaryote evolution and the rise of complex multicellular life. BMC Evol Biol. 4:2.
-
(2004)
BMC Evol Biol.
, vol.4
, pp. 2
-
-
Hedges, S.1
Blair, J.2
Venturi, M.3
Shoe, J.4
-
30
-
-
33751381461
-
Time Tree: A public knowledgebase of divergence times among organisms
-
Hedges SB, Dudley J, Kumar S. 2006. TimeTree: a public knowledgebase of divergence times among organisms. Bioinformatics 22: 2971-2972.
-
(2006)
Bioinformatics
, vol.22
, pp. 2971-2972
-
-
Hedges, S.B.1
Dudley, J.2
Kumar, S.3
-
31
-
-
76749115251
-
Projection of gene-protein networks to the functional space of the proteome and its application to analysis of organism complexity
-
Kanapin AA, Mulder N, Kuznetsov VA. 2010. Projection of gene-protein networks to the functional space of the proteome and its application to analysis of organism complexity. BMC Genomics 11(Suppl 1):S4.
-
(2010)
BMC Genomics
, vol.11
, Issue.SUPPL. 1
-
-
Kanapin, A.A.1
Mulder, N.2
Kuznetsov, V.A.3
-
32
-
-
0014489272
-
Metabolic stability and epigenesis in randomly constructed genetic nets
-
Kauffman SA. 1969. Metabolic stability and epigenesis in randomly constructed genetic nets. J Theor Biol. 22:437-467.
-
(1969)
J Theor Biol.
, vol.22
, pp. 437-467
-
-
Kauffman, S.A.1
-
33
-
-
15744388330
-
Evidence for widespread degradation of gene control regions in hominid genomes
-
Keightley PD, Lercher MJ, Eyre-Walker A. 2005. Evidence for widespread degradation of gene control regions in hominid genomes. PLoS Biol. 3:e42.
-
(2005)
PLoS Biol.
, vol.3
-
-
Keightley, P.D.1
Lercher, M.J.2
Eyre-Walker, A.3
-
34
-
-
33846681383
-
Different levels of alternative splicing among eukaryotes
-
Kim E, Magen A, Ast G. 2007. Different levels of alternative splicing among eukaryotes. Nucleic Acids Res. 35:125-131.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 125-131
-
-
Kim, E.1
Magen, A.2
Ast, G.3
-
35
-
-
4444346326
-
Estimating rates of alternative splicing in mammals and invertebrates
-
Kim H, Klein R, Majewski J, Ott J. 2004. Estimating rates of alternative splicing in mammals and invertebrates. Nat Genet. 36:915-916.
-
(2004)
Nat Genet.
, vol.36
, pp. 915-916
-
-
Kim, H.1
Klein, R.2
Majewski, J.3
Ott, J.4
-
36
-
-
84855731050
-
Ensembl bio marts: A hub for data retrieval across taxonomic space
-
Kinsella RJ, Kähäri A, Haider S, Zamora J, Proctor G, Spudich G, Almeida-King J, Staines D, Derwent P, Kerhornou A, et al. 2011. Ensembl BioMarts: a hub for data retrieval across taxonomic space. Database 2011:bar030.
-
(2011)
Database
-
-
Kinsella, R.J.1
Kähäri, A.2
Haider, S.3
Zamora, J.4
Proctor, G.5
Spudich, G.6
Almeida-King, J.7
Staines, D.8
Derwent, P.9
Kerhornou, A.10
-
37
-
-
0345316714
-
Increase of functional diversity by alternative splicing
-
Kriventseva EV, Koch I, Apweiler R, Vingron M, Bork P, Gelfand MS, Sunyaev S. 2003. Increase of functional diversity by alternative splicing. Trends Genet. 19:124-128.
-
(2003)
Trends Genet.
, vol.19
, pp. 124-128
-
-
Kriventseva, E.V.1
Koch, I.2
Apweiler, R.3
Vingron, M.4
Bork, P.5
Gelfand, M.S.6
Sunyaev, S.7
-
38
-
-
68149175229
-
The consequences of genetic drift for bacterial genome complexity
-
Kuo CH, Moran NA, Ochman H. 2009. The consequences of genetic drift for bacterial genome complexity. Genome Res. 19: 1450-1454.
-
(2009)
Genome Res.
, vol.19
, pp. 1450-1454
-
-
Kuo, C.H.1
Moran, N.A.2
Ochman, H.3
-
39
-
-
2042437650
-
Initial sequencing and analysis of the human genome
-
Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, et al. 2001. Initial sequencing and analysis of the human genome. Nature 409:860-921.
-
(2001)
Nature
, vol.409
, pp. 860-921
-
-
Lander, E.S.1
Linton, L.M.2
Birren, B.3
Nusbaum, C.4
Zody, M.C.5
Baldwin, J.6
Devon, K.7
Dewar, K.8
Doyle, M.9
Fitz Hugh, W.10
-
40
-
-
77958506746
-
Genome-wide phylogenetic comparative analysis of plant transcriptional regulation: A timeline of loss, gain, expansion, and correlation with complexity
-
Lang D,Weiche B, Timmerhaus G, Richardt S, Riano-Pachon DM, Correa LG, Reski R, Mueller-Roeber B, Rensing SA. 2010. Genome-wide phylogenetic comparative analysis of plant transcriptional regulation: a timeline of loss, gain, expansion, and correlation with complexity. Genome Biol Evol. 2:488-503.
-
(2010)
Genome Biol Evol.
, vol.2
, pp. 488-503
-
-
Lang, D.1
Weiche, B.2
Timmerhaus, G.3
Richardt, S.4
Riano-Pachon, D.M.5
Correa, L.G.6
Reski, R.7
Mueller-Roeber, B.8
Rensing, S.A.9
-
41
-
-
46749110034
-
FactoMineR: An R package for multivariate analysis
-
Lê S, Josse J, Husson F. 2008. FactoMineR: an R package for multivariate analysis. J Stat Softw. 25:1-18.
-
(2008)
J Stat Softw.
, vol.25
, pp. 1-18
-
-
Lê, S.1
Josse, J.2
Husson, F.3
-
42
-
-
78651539141
-
Coding potential of the products of alternative splicing in human
-
Leoni G, Le Pera L, Ferre F, Raimondo D, Tramontano A. 2011. Coding potential of the products of alternative splicing in human. Genome Biol. 12:R9.
-
(2011)
Genome Biol.
, vol.12
-
-
Leoni, G.1
Le Pera, L.2
Ferre, F.3
Raimondo, D.4
Tramontano, A.5
-
43
-
-
34547396004
-
The frailty of adaptive hypotheses for the origins of organismal complexity
-
Lynch M. 2007. The frailty of adaptive hypotheses for the origins of organismal complexity. Proc Natl Acad Sci USA. 104:8597-8604.
-
(2007)
Proc Natl Acad Sci USA.
, vol.104
, pp. 8597-8604
-
-
Lynch, M.1
-
44
-
-
0345306751
-
The origins of genome complexity
-
Lynch M, Conery JS. 2003. The origins of genome complexity. Science 302:1401-1404.
-
(2003)
Science
, vol.302
, pp. 1401-1404
-
-
Lynch, M.1
Conery, J.S.2
-
45
-
-
0034525638
-
Functional complexity in organisms: Parts as proxies
-
McShea DW. 2000. Functional complexity in organisms: parts as proxies. Biol Philos. 15:641-668.
-
(2000)
Biol Philos.
, vol.15
, pp. 641-668
-
-
McShea, D.W.1
-
46
-
-
77955793696
-
Unconstrainedmining of transcript data reveals increased alternative splicing complexity in the human transcriptome
-
Mollet IG, Ben-Dov C, Felício-Silva D, Grosso AR, Eleutério P, Alves R, Staller R, Silva TS, Carmo-FonsecaM. 2010. Unconstrainedmining of transcript data reveals increased alternative splicing complexity in the human transcriptome. Nucleic Acids Res. 38:4740-4754.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 4740-4754
-
-
Mollet, I.G.1
Ben-Dov, C.2
Felício-Silva, D.3
Grosso, A.R.4
Eleutério, P.5
Alves, R.6
Staller, R.7
Silva, T.S.8
Carmo-Fonseca, M.9
-
47
-
-
38049174461
-
Life-history traits drive the evolutionary rates of mammalian coding and noncoding genomic elements
-
National Institutes of Health Intramural Sequencing Center Comparative
-
Nikolaev SI, Montoya-Burgos JI, Popadin K, Parand L, Margulies EH, National Institutes of Health Intramural Sequencing Center Comparative Sequencing P, Antonarakis SE. 2007. Life-history traits drive the evolutionary rates of mammalian coding and noncoding genomic elements. Proc Natl Acad Sci USA. 104: 20443-20448.
-
(2007)
Proc Natl Acad Sci USA.
, vol.104
, pp. 20443-20448
-
-
Nikolaev, S.I.1
Montoya-Burgos, J.I.2
Popadin, K.3
Parand, L.4
Margulies, E.H.5
Sequencing, P.6
Antonarakis, S.E.7
-
48
-
-
75849145292
-
Expansion of the eukaryotic proteome by alternative splicing
-
Nilsen TW, Graveley BR. 2010. Expansion of the eukaryotic proteome by alternative splicing. Nature 463:457-463.
-
(2010)
Nature
, vol.463
, pp. 457-463
-
-
Nilsen, T.W.1
Graveley, B.R.2
-
50
-
-
84864697738
-
-
[cited 2014 Mar 25]. Available from
-
Orme D, Freckleton R, Thomas G, Petzoldt T, Fritz S, Isaac N, Pearse W. 2012. caper: comparative analyses of phylogenetics and evolution in R. R package version 0.5. [cited 2014 Mar 25]. Available from: http://CRAN.R-project.org/ package=caper.
-
(2012)
Caper: Comparative Analyses of Phylogenetics and Evolution in R. R Package Version 0.5
-
-
Orme, D.1
Freckleton, R.2
Thomas, G.3
Petzoldt, T.4
Fritz, S.5
Isaac, N.6
Pearse, W.7
-
51
-
-
0033613376
-
Inferring the historical patterns of biological evolution
-
Pagel M. 1999. Inferring the historical patterns of biological evolution. Nature 401:877-884.
-
(1999)
Nature
, vol.401
, pp. 877-884
-
-
Pagel, M.1
-
52
-
-
56749098074
-
Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing
-
Pan Q, Shai O, Lee LJ, Frey BJ, Blencowe BJ. 2008. Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet. 40:1413-1415.
-
(2008)
Nat Genet.
, vol.40
, pp. 1413-1415
-
-
Pan, Q.1
Shai, O.2
Lee, L.J.3
Frey, B.J.4
Blencowe, B.J.5
-
53
-
-
84055193648
-
Evolution and quantitative comparison of genome-wide protein domain distributions
-
Parikesit AA, Stadler PF, Prohaska SJ. 2011. Evolution and quantitative comparison of genome-wide protein domain distributions. Genes 2: 912-924.
-
(2011)
Genes
, vol.2
, pp. 912-924
-
-
Parikesit, A.A.1
Stadler, P.F.2
Prohaska, S.J.3
-
56
-
-
34548082528
-
Accumulation of slightly deleterious mutations in mitochondrial protein-coding genes of large versus small mammals
-
Popadin K, Polishchuk LV, Mamirova L, Knorre D, Gunbin K. 2007. Accumulation of slightly deleterious mutations in mitochondrial protein-coding genes of large versus small mammals. Proc Natl Acad Sci USA. 104:13390-13395.
-
(2007)
Proc Natl Acad Sci USA.
, vol.104
, pp. 13390-13395
-
-
Popadin, K.1
Polishchuk, L.V.2
Mamirova, L.3
Knorre, D.4
Gunbin, K.5
-
57
-
-
45749086679
-
The amphioxus genome and the evolution of the chordate karyotype
-
Putnam NH, Butts T, Ferrier DEK, Furlong RF, Hellsten U, Kawashima T, Robinson-Rechavi M, Shoguchi E, Terry A, Yu J-K, et al. 2008. The amphioxus genome and the evolution of the chordate karyotype. Nature 453:1064-1071.
-
(2008)
Nature
, vol.453
, pp. 1064-1071
-
-
Putnam, N.H.1
Butts, T.2
Ferrier, D.E.K.3
Furlong, R.F.4
Hellsten, U.5
Kawashima, T.6
Robinson-Rechavi, M.7
Shoguchi, E.8
Terry, A.9
Yu, J.-K.10
-
58
-
-
84863304598
-
-
R Development Core Team Vienna (Austria): R Foundation for Statistical Computing
-
R Development Core Team. 2012. R: a language and environment for statistical computing. Vienna (Austria): R Foundation for Statistical Computing.
-
(2012)
R: A Language and Environment for Statistical Computing
-
-
-
59
-
-
1242352406
-
Assessing the impact of alternative splicing on domain interactions in the human proteome
-
Resch A, Xing Y,Modrek B, GorlickM, Riley R, Lee C. 2004. Assessing the impact of alternative splicing on domain interactions in the human proteome. J Proteome Res. 3:76-83.
-
(2004)
J Proteome Res.
, vol.3
, pp. 76-83
-
-
Resch, A.1
Xing, Y.2
Modrek, B.3
Gorlick, M.4
Riley, R.5
Lee, C.6
-
60
-
-
33744814686
-
Alternative splicing in concert with protein intrinsic disorder enables increased functional diversity in multicellular organisms
-
Romero PR, Zaidi S, Fang YY, Uversky VN, Radivojac P, Oldfield CJ, Cortese MS, Sickmeier M, LeGall T, Obradovic Z, et al. 2006. Alternative splicing in concert with protein intrinsic disorder enables increased functional diversity in multicellular organisms. Proc Natl Acad Sci USA. 103:8390-8395.
-
(2006)
Proc Natl Acad Sci USA.
, vol.103
, pp. 8390-8395
-
-
Romero, P.R.1
Zaidi, S.2
Fang, Y.Y.3
Uversky, V.N.4
Radivojac, P.5
Oldfield, C.J.6
Cortese, M.S.7
Sickmeier, M.8
Legall, T.9
Obradovic, Z.10
-
61
-
-
0037799461
-
Superpolynomial growth in the number of attractors in kauffman networks
-
Samuelsson B, Troein C. 2003. Superpolynomial growth in the number of attractors in kauffman networks. Phys Rev Lett. 90:098701.
-
(2003)
Phys Rev Lett.
, vol.90
, pp. 098701
-
-
Samuelsson, B.1
Troein, C.2
-
62
-
-
82655175850
-
The relationship between proteome size, structural disorder and organism complexity
-
Schad E, Tompa P, Hegyi H. 2011. The relationship between proteome size, structural disorder and organism complexity. Genome Biol. 12: R120.
-
(2011)
Genome Biol.
, vol.12
-
-
Schad, E.1
Tompa, P.2
Hegyi, H.3
-
63
-
-
16244362244
-
A gene expression map of Arabidopsis thaliana development
-
Schmid M, Davison TS, Henz SR, Pape UJ, Demar M, Vingron M, Scholkopf B, Weigel D, Lohmann JU. 2005. A gene expression map of Arabidopsis thaliana development. Nat Genet. 37:501-506.
-
(2005)
Nat Genet.
, vol.37
, pp. 501-506
-
-
Schmid, M.1
Davison, T.S.2
Henz, S.R.3
Pape, U.J.4
Demar, M.5
Vingron, M.6
Scholkopf, B.7
Weigel, D.8
Lohmann, J.U.9
-
64
-
-
77953671724
-
On the dynamics of random Boolean networks subject to noise: Attractors, ergodic sets and cell types
-
Serra R, Villani M, Barbieri A, Kauffman SA, Colacci A. 2010. On the dynamics of random Boolean networks subject to noise: attractors, ergodic sets and cell types. J Theor Biol. 265:185-193.
-
(2010)
J Theor Biol.
, vol.265
, pp. 185-193
-
-
Serra, R.1
Villani, M.2
Barbieri, A.3
Kauffman, S.A.4
Colacci, A.5
-
65
-
-
1642473041
-
How prevalent is functional alternative splicing in the human genome?
-
Sorek R, Shamir R, Ast G. 2004. How prevalent is functional alternative splicing in the human genome? Trends Genet. 20:68-71.
-
(2004)
Trends Genet.
, vol.20
, pp. 68-71
-
-
Sorek, R.1
Shamir, R.2
Ast, G.3
-
66
-
-
11144358198
-
A gene atlas of the mouse and human protein-encoding transcriptomes
-
Su AI,Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G, et al. 2004. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci USA. 101:6062-6067.
-
(2004)
Proc Natl Acad Sci USA.
, vol.101
, pp. 6062-6067
-
-
Su, A.I.1
Wiltshire, T.2
Batalov, S.3
Lapp, H.4
Ching, K.A.5
Block, D.6
Zhang, J.7
Soden, R.8
Hayakawa, M.9
Kreiman, G.10
-
67
-
-
2442699825
-
Increasing biological complexity is positively correlated with the relative genome-wide expansion of nonprotein-coding DNA sequences
-
Taft R, Mattick J. 2003. Increasing biological complexity is positively correlated with the relative genome-wide expansion of nonprotein-coding DNA sequences. Genome Biol. 5:P1.
-
(2003)
Genome Biol.
, vol.5
-
-
Taft, R.1
Mattick, J.2
-
68
-
-
56649114578
-
Low conservation and speciesspecific evolution of alternative splicing in humans and mice: Comparative genomics analysis using well-annotated full-length cDNAs
-
Takeda J-i, Suzuki Y, Sakate R, Sato Y, Seki M, Irie T, Takeuchi N, Ueda T, Nakao M, Sugano S, et al. 2008. Low conservation and speciesspecific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs. Nucleic Acids Res. 36:6386-6395.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. 6386-6395
-
-
Takeda, J.-I.1
Suzuki, Y.2
Sakate, R.3
Sato, Y.4
Seki, M.5
Irie, T.6
Takeuchi, N.7
Ueda, T.8
Nakao, M.9
Sugano, S.10
-
69
-
-
55249107194
-
Quantifying organismal complexity using a population genetic approach
-
Tenaillon O, Silander OK, Uzan J-P, Chao L. 2007. Quantifying organismal complexity using a population genetic approach. PLoS One 2:e217.
-
(2007)
PLoS One
, vol.2
-
-
Tenaillon, O.1
Silander, O.K.2
Uzan, J.-P.3
Chao, L.4
-
72
-
-
33746211341
-
Human cell type diversity, evolution, development, and classification with special reference to cells derived from the neural crest
-
Vickaryous MK, Hall BK. 2006. Human cell type diversity, evolution, development, and classification with special reference to cells derived from the neural crest. Biol Rev. 81:425-455.
-
(2006)
Biol Rev.
, vol.81
, pp. 425-455
-
-
Vickaryous, M.K.1
Hall, B.K.2
-
73
-
-
33646909100
-
Protein family expansions and biological complexity
-
Vogel C, Chothia C. 2006. Protein family expansions and biological complexity. PLoS Comput Biol. 2:e48.
-
(2006)
PLoS Comput Biol.
, vol.2
-
-
Vogel, C.1
Chothia, C.2
-
74
-
-
56549101959
-
Alternative isoform regulation in human tissue transcriptomes
-
Wang ET, Sandberg R, Luo S, Khrebtukova I, Zhang L, Mayr C, Kingsmore SF, Schroth GP, Burge CB. 2008. Alternative isoform regulation in human tissue transcriptomes. Nature 456:470-476.
-
(2008)
Nature
, vol.456
, pp. 470-476
-
-
Wang, E.T.1
Sandberg, R.2
Luo, S.3
Khrebtukova, I.4
Zhang, L.5
Mayr, C.6
Kingsmore, S.F.7
Schroth, G.P.8
Burge, C.B.9
-
75
-
-
84856381414
-
The accumulation of gene regulation through time
-
WarneforsM, Eyre-Walker A. 2011. The accumulation of gene regulation through time. Genome Biol Evol. 3:667-673.
-
(2011)
Genome Biol Evol.
, vol.3
, pp. 667-673
-
-
Warnefors, M.1
Eyre-Walker, A.2
-
77
-
-
77957326306
-
Did genetic drift drive increases in genome complexity?
-
Whitney KD, Garland T Jr. 2010. Did Genetic Drift Drive Increases in Genome Complexity? PLoS Genet. 6:e1001080.
-
(2010)
PLoS Genet.
, vol.6
-
-
Whitney, K.D.1
Garland Jr., T.2
-
78
-
-
18744383071
-
GMAP: A genomicmapping and alignment program for mRNA and EST sequences
-
Wu TD,Watanabe CK. 2005. GMAP: a genomicmapping and alignment program for mRNA and EST sequences. Bioinformatics 21: 1859-1875.
-
(2005)
Bioinformatics
, vol.21
, pp. 1859-1875
-
-
Wu, T.D.1
Watanabe, C.K.2
-
79
-
-
50649112170
-
Impacts of protein-protein interaction domains on organism and network complexity
-
Xia K, Fu Z, Hou L, Han J-DJ. 2008. Impacts of protein-protein interaction domains on organism and network complexity. Genome Res. 18:1500-1508.
-
(2008)
Genome Res.
, vol.18
, pp. 1500-1508
-
-
Xia, K.1
Fu, Z.2
Hou, L.3
Han, J.-D.J.4
-
80
-
-
42449149201
-
Relating alternative splicing to proteome complexity and genome evolution
-
Xing Y, Lee C. 2007. Relating alternative splicing to proteome complexity and genome evolution. Adv Exp Med Biol. 623:36-49.
-
(2007)
Adv Exp Med Biol.
, vol.623
, pp. 36-49
-
-
Xing, Y.1
Lee, C.2
-
81
-
-
84859701551
-
Orderly order in protein intrinsic disorder distribution: Disorder in 3500 proteomes from viruses and the three domains of life
-
Xue B, Dunker AK, Uversky VN. 2012. Orderly order in protein intrinsic disorder distribution: disorder in 3500 proteomes from viruses and the three domains of life. J Biomol Struct Dyn. 30:137-149.
-
(2012)
J Biomol Struct Dyn.
, vol.30
, pp. 137-149
-
-
Xue, B.1
Dunker, A.K.2
Uversky, V.N.3
-
82
-
-
79961064486
-
Factors that contribute to variation in evolutionary rate among Arabidopsis genes
-
Yang L, Gaut BS. 2011. Factors that contribute to variation in evolutionary rate among Arabidopsis genes. Mol Biol Evol. 28: 2359-2369.
-
(2011)
Mol Biol Evol.
, vol.28
, pp. 2359-2369
-
-
Yang, L.1
Gaut, B.S.2
|