-
1
-
-
0036529621
-
Comparative genomics and evolution of proteins involved in RNA metabolism
-
Anantharaman V, Koonin EV, Aravind L: Comparative genomics and evolution of proteins involved in RNA metabolism. Nucleic Acids Res 2002, 30:1427-1464.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 1427-1464
-
-
Anantharaman, V.1
Koonin, E.V.2
Aravind, L.3
-
2
-
-
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, Funke R, Gage D, Harris K, Heaford A, Howland J, Kann L, Lehoczky J, LeVine R, McEwan P, McKernan K, Meldrim J, Mesirov JP, Miranda C, Morris W, Naylor J, Raymond C, Rosetti M, Santos R, Sheridan A, Sougnez C, Stange-Thomann N, Stojanovic N, Subramanian A, Wyman D, Rogers J, Sulston J, Ainscough R, Beck S, Bentley D, Burton J, Clee C, Carter N, Coulson A, Deadman R, Deloukas P, Dunham A, Dunham I, Durbin R, French L, Grafham D, Gregory S, Hubbard T, Humphray S, Hunt A, Jones M, Lloyd C, McMurray A, Matthews L, Mercer S, Milne S, Mullikin JC, Mungall A, Plumb R, Ross M, Shownkeen R, Sims S, Waterston RH, Wilson RK, Hillier LW, McPherson JD, Marra MA, Mardis ER, Fulton LA, Chinwalla AT, Pepin KH, Gish WR, Chissoe SL, Wendl MC, Delehaunty KD, Miner TL, Delehaunty A, Kramer JB, Cook LL, Fulton RS, Johnson DL, Minx PJ, Clifton SW, Hawkins T, Branscomb E, Predki P, Richardson P, Wenning S, Slezak T, Doggett N, Cheng JF, Olsen A, Lucas S, Elkin C, Uberbacher E, et al.: Initial sequencing and analysis of the human genome. Nature 2001, 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
FitzHugh, W.10
Funke, R.11
Gage, D.12
Harris, K.13
Heaford, A.14
Howland, J.15
Kann, L.16
Lehoczky, J.17
LeVine, R.18
McEwan, P.19
McKernan, K.20
Meldrim, J.21
Mesirov, J.P.22
Miranda, C.23
Morris, W.24
Naylor, J.25
Raymond, C.26
Rosetti, M.27
Santos, R.28
Sheridan, A.29
Sougnez, C.30
Stange-Thomann, N.31
Stojanovic, N.32
Subramanian, A.33
Wyman, D.34
Rogers, J.35
Sulston, J.36
Ainscough, R.37
Beck, S.38
Bentley, D.39
Burton, J.40
Clee, C.41
Carter, N.42
Coulson, A.43
Deadman, R.44
Deloukas, P.45
Dunham, A.46
Dunham, I.47
Durbin, R.48
French, L.49
Grafham, D.50
Gregory, S.51
Hubbard, T.52
Humphray, S.53
Hunt, A.54
Jones, M.55
Lloyd, C.56
McMurray, A.57
Matthews, L.58
Mercer, S.59
Milne, S.60
Mullikin, J.C.61
Mungall, A.62
Plumb, R.63
Ross, M.64
Shownkeen, R.65
Sims, S.66
Waterston, R.H.67
Wilson, R.K.68
Hillier, L.W.69
McPherson, J.D.70
Marra, M.A.71
Mardis, E.R.72
Fulton, L.A.73
Chinwalla, A.T.74
Pepin, K.H.75
Gish, W.R.76
Chissoe, S.L.77
Wendl, M.C.78
Delehaunty, K.D.79
Miner, T.L.80
Delehaunty, A.81
Kramer, J.B.82
Cook, L.L.83
Fulton, R.S.84
Johnson, D.L.85
Minx, P.J.86
Clifton, S.W.87
Hawkins, T.88
Branscomb, E.89
Predki, P.90
Richardson, P.91
Wenning, S.92
Slezak, T.93
Doggett, N.94
Cheng, J.F.95
Olsen, A.96
Lucas, S.97
Elkin, C.98
Uberbacher, E.99
more..
-
3
-
-
0034708480
-
The genome sequence of Drosophila melanogaster
-
Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD, Amanatides PG, Scherer SE, Li PW, Hoskins RA, Galle RF, George RA, Lewis SE, Richards S, Ashburner M, Henderson SN, Sutton GG, Wortman JR, Yandell MD, Zhang Q, Chen LX, Brandon RC, Rogers YH, Blazej RG, Champe M, Pfeiffer BD, Wan KH, Doyle C, Baxter EG, Helt G, Nelson CR, Gabor GL, Abril JF, Agbayani A, An HJ, Andrews-Pfannkoch C, Baldwin D, Ballew RM, Basu A, Baxendale J, Bayraktaroglu L, Beasley EM, Beeson KY, Benos PV, Berman BP, Bhandari D, Bolshakov S, Borkova D, Botchan MR, Bouck J, Brokstein P, Brottier P, Burtis KC, Busam DA, Butler H, Cadieu E, Center A, Chandra I, Cherry JM, Cawley S, Dahlke C, Davenport LB, Davies P, de Pablos B, Delcher A, Deng Z, Mays AD, Dew I, Dietz SM, Dodson K, Doup LE, Downes M, Dugan-Rocha S, Dunkov BC, Dunn P, Durbin KJ, Evangelista CC, Ferraz C, Ferriera S, Fleischmann W, Fosler C, Gabrielian AE, Garg NS, Gelbart WM, Glasser K, Glodek A, Gong F, Gorrell JH, Gu Z, Guan P, Harris M, Harris NL, Harvey D, Heiman TJ, Hernandez JR, Houck J, Hostin D, Houston KA, Howland TJ, Wei MH, et al.: The genome sequence of Drosophila melanogaster. Science 2000, 287:2185-2195.
-
(2000)
Science
, vol.287
, pp. 2185-2195
-
-
Adams, M.D.1
Celniker, S.E.2
Holt, R.A.3
Evans, C.A.4
Gocayne, J.D.5
Amanatides, P.G.6
Scherer, S.E.7
Li, P.W.8
Hoskins, R.A.9
Galle, R.F.10
George, R.A.11
Lewis, S.E.12
Richards, S.13
Ashburner, M.14
Henderson, S.N.15
Sutton, G.G.16
Wortman, J.R.17
Yandell, M.D.18
Zhang, Q.19
Chen, L.X.20
Brandon, R.C.21
Rogers, Y.H.22
Blazej, R.G.23
Champe, M.24
Pfeiffer, B.D.25
Wan, K.H.26
Doyle, C.27
Baxter, E.G.28
Helt, G.29
Nelson, C.R.30
Gabor, G.L.31
Abril, J.F.32
Agbayani, A.33
An, H.J.34
Andrews-Pfannkoch, C.35
Baldwin, D.36
Ballew, R.M.37
Basu, A.38
Baxendale, J.39
Bayraktaroglu, L.40
Beasley, E.M.41
Beeson, K.Y.42
Benos, P.V.43
Berman, B.P.44
Bhandari, D.45
Bolshakov, S.46
Borkova, D.47
Botchan, M.R.48
Bouck, J.49
Brokstein, P.50
Brottier, P.51
Burtis, K.C.52
Busam, D.A.53
Butler, H.54
Cadieu, E.55
Center, A.56
Chandra, I.57
Cherry, J.M.58
Cawley, S.59
Dahlke, C.60
Davenport, L.B.61
Davies, P.62
de Pablos, B.63
Delcher, A.64
Deng, Z.65
Mays, A.D.66
Dew, I.67
Dietz, S.M.68
Dodson, K.69
Doup, L.E.70
Downes, M.71
Dugan-Rocha, S.72
Dunkov, B.C.73
Dunn, P.74
Durbin, K.J.75
Evangelista, C.C.76
Ferraz, C.77
Ferriera, S.78
Fleischmann, W.79
Fosler, C.80
Gabrielian, A.E.81
Garg, N.S.82
Gelbart, W.M.83
Glasser, K.84
Glodek, A.85
Gong, F.86
Gorrell, J.H.87
Gu, Z.88
Guan, P.89
Harris, M.90
Harris, N.L.91
Harvey, D.92
Heiman, T.J.93
Hernandez, J.R.94
Houck, J.95
Hostin, D.96
Houston, K.A.97
Howland, T.J.98
Wei, M.H.99
more..
-
4
-
-
0032766490
-
Comparative genomics of the Archaea (Euryarchaeota): Evolution of conserved protein families, the stable core, and the variable shell
-
Makarova KS, Aravind L, Galperin MY, Grishin NV, Tatusov RL, Wolf YI, Koonin EV: Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell. Genome Res 1999, 9:608-628.
-
(1999)
Genome Res.
, vol.9
, pp. 608-628
-
-
Makarova, K.S.1
Aravind, L.2
Galperin, M.Y.3
Grishin, N.V.4
Tatusov, R.L.5
Wolf, Y.I.6
Koonin, E.V.7
-
5
-
-
0033616714
-
Horizontal gene transfer among genomes: The complexity hypothesis
-
Jain R, Rivera MC, Lake JA: Horizontal gene transfer among genomes: the complexity hypothesis. Proc Natl Acad Sci U S A 1999, 96:3801-3806.
-
(1999)
Proc. Natl. Acad. Sci. U S A
, vol.96
, pp. 3801-3806
-
-
Jain, R.1
Rivera, M.C.2
Lake, J.A.3
-
6
-
-
0034306266
-
Domains in gene silencing and cell differentiation proteins: The novel PAZ domain and redefinition of the Piwi domain
-
Cerutti L, Mian N, Bateman A: Domains in gene silencing and cell differentiation proteins: the novel PAZ domain and redefinition of the Piwi domain. Trends Biochem Sci 2000, 25:481-482.
-
(2000)
Trends Biochem. Sci.
, vol.25
, pp. 481-482
-
-
Cerutti, L.1
Mian, N.2
Bateman, A.3
-
7
-
-
0027943711
-
SWAP premRNA splicing regulators are a novel, ancient protein family sharing a highly conserved sequence motif with the prp21 family of constitutive splicing proteins
-
Spikes DA, Kramer J, Bingham PM, Van Doren K: SWAP premRNA splicing regulators are a novel, ancient protein family sharing a highly conserved sequence motif with the prp21 family of constitutive splicing proteins. Nucleic Acids Res 1994, 22:4510-4519.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4510-4519
-
-
Spikes, D.A.1
Kramer, J.2
Bingham, P.M.3
Van Doren, K.4
-
8
-
-
0037443092
-
Structure and function of the PWI motif: A novel nucleic acid-binding domain that facilitates pre-mRNA processing
-
Szymczyna BR, Bowman J, McCracken S, Pineda-Lucena A, Lu Y, Cox B, Lambermon M, Graveley BR, Arrowsmith CH, Blencowe BJ: Structure and function of the PWI motif: a novel nucleic acid-binding domain that facilitates pre-mRNA processing. Genes Dev 2003, 17 461-475.
-
(2003)
Genes Dev.
, vol.17
, pp. 461-475
-
-
Szymczyna, B.R.1
Bowman, J.2
McCracken, S.3
Pineda-Lucena, A.4
Lu, Y.5
Cox, B.6
Lambermon, M.7
Graveley, B.R.8
Arrowsmith, C.H.9
Blencowe, B.J.10
-
9
-
-
0034745504
-
Prediction of the archaeal exosome and its connections with the proteasome and the translation and transcription machineries by a comparative-genomic approach
-
Koonin EV, Wolf YI, Aravind L: Prediction of the archaeal exosome and its connections with the proteasome and the translation and transcription machineries by a comparative-genomic approach. Genome Res 2001, 11:240-252.
-
(2001)
Genome Res.
, vol.11
, pp. 240-252
-
-
Koonin, E.V.1
Wolf, Y.I.2
Aravind, L.3
-
10
-
-
0036231352
-
Archaeal RNase P has multiple protein subunits homologous to eukaryotic nuclear RNase P proteins
-
Hall TA, Brown JW: Archaeal RNase P has multiple protein subunits homologous to eukaryotic nuclear RNase P proteins. Rna 2002, 8:296-306.
-
(2002)
Rna
, vol.8
, pp. 296-306
-
-
Hall, T.A.1
Brown, J.W.2
-
11
-
-
0035312922
-
THUMP - A predicted RNA-binding domain shared by 4-thiouridine and pseudouridine synthases and RNA methylases
-
Aravind L, Koonin EV: THUMP - a predicted RNA-binding domain shared by 4-thiouridine and pseudouridine synthases and RNA methylases. Trends in Biochem Sci 2001, 26:215-217.
-
(2001)
Trends in Biochem. Sci.
, vol.26
, pp. 215-217
-
-
Aravind, L.1
Koonin, E.V.2
-
12
-
-
0034649546
-
PIN domains in nonsense-mediated mRNA decay and RNAi
-
Clissold PM, Ponting CP: PIN domains in nonsense-mediated mRNA decay and RNAi. Curr Biol 2000, 10:R888-90.
-
(2000)
Curr. Biol.
, vol.10
-
-
Clissold, P.M.1
Ponting, C.P.2
-
13
-
-
0033133976
-
The PWI motif: A new protein domain in splicing factors
-
Blencowe BJ, Ouzounis CA: The PWI motif: a new protein domain in splicing factors. Trends Biochem Sci 1999, 24: 79-180.
-
(1999)
Trends Biochem. Sci.
, vol.24
, pp. 179-180
-
-
Blencowe, B.J.1
Ouzounis, C.A.2
-
14
-
-
0036132209
-
SPOUT: A class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases
-
Anantharaman Vivek., Koonin EV, Aravind L: SPOUT: a class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases. J Mol Micro Biotech 2002, 4:71-75.
-
(2002)
J. Mol. Micro. Biotech.
, vol.4
, pp. 71-75
-
-
Anantharaman, V.1
Koonin, E.V.2
Aravind, L.3
-
15
-
-
0033046425
-
Novel predicted RNA-binding domains associated with the translation machinery
-
Aravind L, Koonin EV: Novel predicted RNA-binding domains associated with the translation machinery. J Mol Evol 1999, 48:291-302.
-
(1999)
J. Mol. Evol.
, vol.48
, pp. 291-302
-
-
Aravind, L.1
Koonin, E.V.2
-
16
-
-
0026058877
-
Arginine/serine-rich domains of the su(wa) and tra RNA processing regulators target proteins to a subnuclear compartment implicated in splicing
-
Li H, Bingham PM: Arginine/serine-rich domains of the su(wa) and tra RNA processing regulators target proteins to a subnuclear compartment implicated in splicing. Cell 1991, 67:335-342.
-
(1991)
Cell
, vol.67
, pp. 335-342
-
-
Li, H.1
Bingham, P.M.2
-
17
-
-
0027753933
-
Analysis of the RNA-recognition motif and RS and RGG domains: Conservation in metazoan pre-mRNA splicing factors
-
Birney E, Kumar S, Krainer AR: Analysis of the RNA-recognition motif and RS and RGG domains: conservation in metazoan pre-mRNA splicing factors. Nucleic Acids Res 1993, 21: 803-5816.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 5803-5816
-
-
Birney, E.1
Kumar, S.2
Krainer, A.R.3
-
18
-
-
0026740718
-
Primary structure and binding activity of the hnRNP U protein: Binding RNA through RGG box
-
Kiledjian M, Dreyfuss G: Primary structure and binding activity of the hnRNP U protein: binding RNA through RGG box. Embo J 1992, 11:2655-2664.
-
(1992)
Embo. J.
, vol.11
, pp. 2655-2664
-
-
Kiledjian, M.1
Dreyfuss, G.2
-
19
-
-
0141631894
-
G-quartet-dependent recognition between the FMRP RGG box and RNA
-
Ramos A, Hollingworth D, Pastore A: G-quartet-dependent recognition between the FMRP RGG box and RNA. Rna 2003, 9: 198-1207.
-
(2003)
Rna
, vol.9
, pp. 1198-1207
-
-
Ramos, A.1
Hollingworth, D.2
Pastore, A.3
-
20
-
-
0035853480
-
TRAM, a predicted RNA-binding domain, common to tRNA uracil methylation and adenine thiolation enzymes
-
Anantharaman V, Koonin EV, Aravind L: TRAM, a predicted RNA-binding domain, common to tRNA uracil methylation and adenine thiolation enzymes. FEMS Microbiol Lett 2001, 197:215-221.
-
(2001)
FEMS Microbiol. Lett.
, vol.197
, pp. 215-221
-
-
Anantharaman, V.1
Koonin, E.V.2
Aravind, L.3
-
21
-
-
0036132209
-
SPOUT: A class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases
-
Anantharaman V, Koonin EV, Aravind L: SPOUT: a class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases. J Mol Microbiol Biotechnol 2002, 4:71-75.
-
(2002)
J. Mol. Microbiol. Biotechnol.
, vol.4
, pp. 71-75
-
-
Anantharaman, V.1
Koonin, E.V.2
Aravind, L.3
-
22
-
-
0028501914
-
Non-globular domains in protein sequences: Automated segmentation using complexity measures
-
Wootton JC: Non-globular domains in protein sequences: automated segmentation using complexity measures. Comput Chem 1994, 18:269-285.
-
(1994)
Comput. Chem.
, vol.18
, pp. 269-285
-
-
Wootton, J.C.1
-
23
-
-
0011542799
-
The Pfam protein families database
-
Bateman A, Birney E, Cerruti L, Durbin R, Etwiller L, Eddy SR, Griffiths-Jones S, Howe KL, Marshall M, Sonnhammer EL: The Pfam protein families database. Nucleic Acids Res 2002, 30 276-280.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 276-280
-
-
Bateman, A.1
Birney, E.2
Cerruti, L.3
Durbin, R.4
Etwiller, L.5
Eddy, S.R.6
Griffiths-Jones, S.7
Howe, K.L.8
Marshall, M.9
Sonnhammer, E.L.10
-
24
-
-
0031883849
-
Ataxin-2, global regulators of bacterial gene expression, and spliceosomal snRNP proteins share a conserved domain
-
Neuwald AF, Koonin EV: Ataxin-2, global regulators of bacterial gene expression, and spliceosomal snRNP proteins share a conserved domain. J Mol Med 1998, 76:3-5.
-
(1998)
J. Mol. Med.
, vol.76
, pp. 3-5
-
-
Neuwald, A.F.1
Koonin, E.V.2
-
25
-
-
0035341325
-
RNA binding in an Sm core domain: X-ray structure and functional analysis of an archaeal Sm protein complex
-
Toro I, Thore S, Mayer C, Basquin J, Seraphin B, Suck D: RNA binding in an Sm core domain: X-ray structure and functional analysis of an archaeal Sm protein complex. Embo J 2001, 20: 293-2303.
-
(2001)
Embo. J.
, vol.20
, pp. 2293-2303
-
-
Toro, I.1
Thore, S.2
Mayer, C.3
Basquin, J.4
Seraphin, B.5
Suck, D.6
-
26
-
-
0033524941
-
Crystal structures of two Sm protein complexes and their implications for the assembly of the spliceosomal snRNPs
-
Kambach C, Walke S, Young R, Avis JM, de la Fortelle E, Raker VA, Luhrmann R, Li J, Nagai K: Crystal structures of two Sm protein complexes and their implications for the assembly of the spliceosomal snRNPs. Cell 1999, 96:375-387.
-
(1999)
Cell
, vol.96
, pp. 375-387
-
-
Kambach, C.1
Walke, S.2
Young, R.3
Avis, J.M.4
de la Fortelle, E.5
Raker, V.A.6
Luhrmann, R.7
Li, J.8
Nagai, K.9
-
27
-
-
9444293216
-
SCOP database
-
B
-
B: SCOP database. [http://scop.mrc-lmb.cam.ac.uk/scop/].
-
-
-
-
28
-
-
0037428440
-
Crystal structures of the Pyrococcus abyssi Sm core and its complex with RNA. Common features of RNA binding in archaea and eukarya
-
Thore S, Mayer C, Sauter C, Weeks S, Suck D: Crystal structures of the Pyrococcus abyssi Sm core and its complex with RNA. Common features of RNA binding in archaea and eukarya. J Biol Chem 2003, 278:1239-1247.
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 1239-1247
-
-
Thore, S.1
Mayer, C.2
Sauter, C.3
Weeks, S.4
Suck, D.5
-
29
-
-
2242431668
-
Crystal structure of Escherichia coli MscS, a voltage-modulated and mechanosensitive channel
-
Bass RB, Strop P, Barclay M, Rees DC: Crystal structure of Escherichia coli MscS, a voltage-modulated and mechanosensitive channel Science 2002, 298:1582-1587.
-
(2002)
Science
, vol.298
, pp. 1582-1587
-
-
Bass, R.B.1
Strop, P.2
Barclay, M.3
Rees, D.C.4
-
30
-
-
0035957394
-
The Sm domain is an ancient RNA-binding motif with oligo(U) specificity
-
Epub 2001 Mar 20
-
Achsel T, Stark H, Luhrmann R: The Sm domain is an ancient RNA-binding motif with oligo(U) specificity. Proc Natl Acad Sci U S A 2001, 98:3685-9. Epub 2001 Mar 20.
-
(2001)
Proc. Natl. Acad. Sci. U S A
, vol.98
, pp. 3685-3689
-
-
Achsel, T.1
Stark, H.2
Luhrmann, R.3
-
31
-
-
0031732101
-
Suppressors of cdc25p overexpression identify two pathways that influence the G2/M checkpoint in fission yeast
-
Forbes KC, Humphrey T, Enoch T: Suppressors of cdc25p overexpression identify two pathways that influence the G2/M checkpoint in fission yeast. Genetics 1998, 150:1361-1375.
-
(1998)
Genetics
, vol.150
, pp. 1361-1375
-
-
Forbes, K.C.1
Humphrey, T.2
Enoch, T.3
-
32
-
-
0142184341
-
Global analysis of protein localization in budding yeast
-
Huh WK, Falvo JV, Gerke LC, Carroll AS, Howson RW, Weissman JS, O'Shea EK: Global analysis of protein localization in budding yeast. Nature 2003, 425:686-691.
-
(2003)
Nature
, vol.425
, pp. 686-691
-
-
Huh, W.K.1
Falvo, J.V.2
Gerke, L.C.3
Carroll, A.S.4
Howson, R.W.5
Weissman, J.S.6
O'Shea, E.K.7
-
33
-
-
0034676457
-
Functional genomic analysis of C. elegans chromosome I by systematic RNA interference
-
Fraser AG, Kamath RS, Zipperlen P, Martinez-Campos M, Sohrmann M, Ahringer J: Functional genomic analysis of C. elegans chromosome I by systematic RNA interference. Nature 2000, 408:325-330.
-
(2000)
Nature
, vol.408
, pp. 325-330
-
-
Fraser, A.G.1
Kamath, R.S.2
Zipperlen, P.3
Martinez-Campos, M.4
Sohrmann, M.5
Ahringer, J.6
-
34
-
-
1542298437
-
Genome-Wide RNAi of C. elegans Using the Hypersensitive rrf-3 Strain Reveals Novel Gene Functions
-
Epub 2003 Oct 13
-
Simmer F, Moorman C, Van Der Linden AM, Kuijk E, Van Den Berghe PV, Kamath R, Fraser AG, Ahringer J, Plasterk RH: Genome-Wide RNAi of C. elegans Using the Hypersensitive rrf-3 Strain Reveals Novel Gene Functions. PLoS Biol 2003, 1:E12. Epub 2003 Oct 13..
-
(2003)
PLoS. Biol.
, vol.1
-
-
Simmer, F.1
Moorman, C.2
Van Der Linden, A.M.3
Kuijk, E.4
Van Den Berghe, P.V.5
Kamath, R.6
Fraser, A.G.7
Ahringer, J.8
Plasterk, R.H.9
-
35
-
-
0034599976
-
A Sm-like protein complex that participates in mRNA degradation
-
Bouveret E, Rigaut G, Shevchenko A, Wilm M, Seraphin B: A Sm-like protein complex that participates in mRNA degradation. Embo J 2000, 19:1661-1671.
-
(2000)
Embo. J.
, vol.19
, pp. 1661-1671
-
-
Bouveret, E.1
Rigaut, G.2
Shevchenko, A.3
Wilm, M.4
Seraphin, B.5
-
36
-
-
0032534479
-
Identification of a novel mRNA-associated protein in oocytes of Pleurodeles waltl and Xenopus laevis
-
Lieb B, Carl M, Hock R, Gebauer D, Scheer U: Identification of a novel mRNA-associated protein in oocytes of Pleurodeles waltl and Xenopus laevis. Exp Cell Res 1998, 245: 72-281.
-
(1998)
Exp. Cell Res.
, vol.245
, pp. 272-281
-
-
Lieb, B.1
Carl, M.2
Hock, R.3
Gebauer, D.4
Scheer, U.5
-
37
-
-
0033564627
-
Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin
-
Salgado-Garrido J, Bragado-Nilsson E, Kandels-Lewis S, Seraphin B: Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin. Embo J 1999, 18:3451-3462.
-
(1999)
Embo. J.
, vol.18
, pp. 3451-3462
-
-
Salgado-Garrido, J.1
Bragado-Nilsson, E.2
Kandels-Lewis, S.3
Seraphin, B.4
-
38
-
-
0030007060
-
The snRNP core assembly pathway: Identification of stable core protein heteromeric complexes and an snRNP subcore particle in vitro
-
Raker VA, Plessel G, Luhrmann R: The snRNP core assembly pathway: identification of stable core protein heteromeric complexes and an snRNP subcore particle in vitro. Embo J 1996, 15: 256-2269.
-
(1996)
Embo. J.
, vol.15
, pp. 2256-2269
-
-
Raker, V.A.1
Plessel, G.2
Luhrmann, R.3
-
39
-
-
0036909093
-
The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci
-
Ingelfinger D, Arndt-Jovin DJ, Luhrmann R, Achsel T: The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci. Rna 2002, 8: 489-1501.
-
(2002)
Rna
, vol.8
, pp. 1489-1501
-
-
Ingelfinger, D.1
Arndt-Jovin, D.J.2
Luhrmann, R.3
Achsel, T.4
-
40
-
-
0034732089
-
Yeast Sm-like proteins function in mRNA decapping and decay
-
Tharun S, He W, Mayes AE, Lennertz P, Beggs JD, Parker R: Yeast Sm-like proteins function in mRNA decapping and decay. Nature 2000, 404:515-518.
-
(2000)
Nature
, vol.404
, pp. 515-518
-
-
Tharun, S.1
He, W.2
Mayes, A.E.3
Lennertz, P.4
Beggs, J.D.5
Parker, R.6
-
41
-
-
0033539171
-
Saccharomyces cerevisiae telomerase is an Sm small nuclear ribonucleoprotein particle
-
Seto AG, Zaug AJ, Sobel SG, Wolin SL, Cech TR: Saccharomyces cerevisiae telomerase is an Sm small nuclear ribonucleoprotein particle. Nature 1999, 401:177-180.
-
(1999)
Nature
, vol.401
, pp. 177-180
-
-
Seto, A.G.1
Zaug, A.J.2
Sobel, S.G.3
Wolin, S.L.4
Cech, T.R.5
-
42
-
-
0034628508
-
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
-
Uetz P, Giot L, Cagney G, Mansfield TA, Judson RS, Knight JR, Lockshon D, Narayan V, Srinivasan M, Pochart P, Qureshi-Emili A, Li Y, Godwin B, Conover D, Kalbfleisch T, Vijayadamodar G, Yang M, Johnston M, Fields S, Rothberg JM: A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 2000, 403: 23-627.
-
(2000)
Nature
, vol.403
, pp. 623-627
-
-
Uetz, P.1
Giot, L.2
Cagney, G.3
Mansfield, T.A.4
Judson, R.S.5
Knight, J.R.6
Lockshon, D.7
Narayan, V.8
Srinivasan, M.9
Pochart, P.10
Qureshi-Emili, A.11
Li, Y.12
Godwin, B.13
Conover, D.14
Kalbfleisch, T.15
Vijayadamodar, G.16
Yang, M.17
Johnston, M.18
Fields, S.19
Rothberg, J.M.20
more..
-
43
-
-
0035836765
-
A comprehensive two-hybrid analysis to explore the yeast protein interactome
-
Epub 2001 Mar 13
-
Ito T, Chiba T, Ozawa R, Yoshida M, Hattori M, Sakaki Y: A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc Natl Acad Sci U S A 2001, 98:4569-74. Epub 2001 Mar 13..
-
(2001)
Proc. Natl. Acad. Sci. U S A
, vol.98
, pp. 4569-4574
-
-
Ito, T.1
Chiba, T.2
Ozawa, R.3
Yoshida, M.4
Hattori, M.5
Sakaki, Y.6
-
44
-
-
0037050026
-
Functional organization of the yeast proteome by systematic analysis of protein complexes
-
Gavin AC, Bosche M, Krause R, Grandi P, Marzioch M, Bauer A, Schultz J, Rick JM, Michon AM, Cruciat CM, Remor M, Hofert C, Schelder M, Brajenovic M, Ruffner H, Merino A, Klein K, Hudak M, Dickson D, Rudi T, Gnau V, Bauch A, Bastuck S, Huhse B, Leutwein C, Heurtier MA, Copley RR, Edelmann A, Querfurth E, Rybin V, Drewes G, Raida M, Bouwmeester T, Bork P, Seraphin B, Kuster B, Neubauer G, Superti-Furga G: Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 2002, 415:141-147.
-
(2002)
Nature
, vol.415
, pp. 141-147
-
-
Gavin, A.C.1
Bosche, M.2
Krause, R.3
Grandi, P.4
Marzioch, M.5
Bauer, A.6
Schultz, J.7
Rick, J.M.8
Michon, A.M.9
Cruciat, C.M.10
Remor, M.11
Hofert, C.12
Schelder, M.13
Brajenovic, M.14
Ruffner, H.15
Merino, A.16
Klein, K.17
Hudak, M.18
Dickson, D.19
Rudi, T.20
Gnau, V.21
Bauch, A.22
Bastuck, S.23
Huhse, B.24
Leutwein, C.25
Heurtier, M.A.26
Copley, R.R.27
Edelmann, A.28
Querfurth, E.29
Rybin, V.30
Drewes, G.31
Raida, M.32
Bouwmeester, T.33
Bork, P.34
Seraphin, B.35
Kuster, B.36
Neubauer, G.37
Superti-Furga, G.38
more..
-
45
-
-
0037968357
-
Decapping and decay of messenger RNA occur in cytoplasmic processing bodies
-
Sheth U, Parker R: Decapping and decay of messenger RNA occur in cytoplasmic processing bodies. Science 2003, 300: 805-808.
-
(2003)
Science
, vol.300
, pp. 805-808
-
-
Sheth, U.1
Parker, R.2
-
46
-
-
0142011067
-
Evolution and classification of P-loop kinases and related proteins
-
Leipe DD, Koonin EV, Aravind L: Evolution and classification of P-loop kinases and related proteins. J Mol Biol 2003, 333:781-815.
-
(2003)
J. Mol. Biol.
, vol.333
, pp. 781-815
-
-
Leipe, D.D.1
Koonin, E.V.2
Aravind, L.3
-
47
-
-
0344059121
-
Structure and assembly of an augmented Sm-like archaeal protein 14-mer
-
Epub 2003 Mar 31
-
Mura C, Phillips M, Kozhukhovsky A, Eisenberg D: Structure and assembly of an augmented Sm-like archaeal protein 14-mer. Proc Natl Acad Sci U S A 2003, 100:4539-44. Epub 2003 Mar 31..
-
(2003)
Proc. Natl. Acad. Sci. U S A
, vol.100
, pp. 4539-4544
-
-
Mura, C.1
Phillips, M.2
Kozhukhovsky, A.3
Eisenberg, D.4
-
48
-
-
0035106688
-
A biochemical function for the Sm complex
-
Zhang D, Abovich N, Rosbash M: A biochemical function for the Sm complex. Mol Cell 2001, 7:319-329.
-
(2001)
Mol. Cell
, vol.7
, pp. 319-329
-
-
Zhang, D.1
Abovich, N.2
Rosbash, M.3
-
49
-
-
0037322952
-
The enhancer of decapping proteins, Edc1p and Edc2p, bind RNA and stimulate the activity of the decapping enzyme
-
Schwartz D, Decker CJ, Parker R: The enhancer of decapping proteins, Edc1p and Edc2p, bind RNA and stimulate the activity of the decapping enzyme. Rna 2003, 9:239-251.
-
(2003)
Rna
, vol.9
, pp. 239-251
-
-
Schwartz, D.1
Decker, C.J.2
Parker, R.3
-
50
-
-
0037157144
-
An EVH1/WH1 domain as a key actor in TGFbeta signalling
-
Callebaut I: An EVH1/WH1 domain as a key actor in TGFbeta signalling. FEBS Lett 2002, 519:178-180.
-
(2002)
FEBS Lett.
, vol.519
, pp. 178-180
-
-
Callebaut, I.1
-
51
-
-
0033214061
-
The DCP2 protein is required for mRNA decapping in Saccharomyces cerevisiae and contains a functional MutT motif
-
Dunckley T, Parker R: The DCP2 protein is required for mRNA decapping in Saccharomyces cerevisiae and contains a functional MutT motif. Embo J 1999, 18:5411-5422.
-
(1999)
Embo. J.
, vol.18
, pp. 5411-5422
-
-
Dunckley, T.1
Parker, R.2
-
52
-
-
0036290884
-
Archaeal Sm proteins form heptameric and hexameric complexes: Crystal structures of the Sm1 and Sm2 proteins from the hyperthermophile Archaeoglobus fulgidus
-
Toro I, Basquin J, Teo-Dreher H, Suck D: Archaeal Sm proteins form heptameric and hexameric complexes: crystal structures of the Sm1 and Sm2 proteins from the hyperthermophile Archaeoglobus fulgidus J Mol Biol 2002, 320:129-142.
-
(2002)
J. Mol. Biol.
, vol.320
, pp. 129-142
-
-
Toro, I.1
Basquin, J.2
Teo-Dreher, H.3
Suck, D.4
-
53
-
-
0036645689
-
Structures of the pleiotropic translational regulator Hfq and an Hfq-RNA complex: A bacterial Sm-like protein
-
Schumacher MA, Pearson RF, Moller T, Valentin-Hansen P, Brennan RG: Structures of the pleiotropic translational regulator Hfq and an Hfq-RNA complex: a bacterial Sm-like protein. Embo J 2002, 21:3546-3556.
-
(2002)
Embo. J.
, vol.21
, pp. 3546-3556
-
-
Schumacher, M.A.1
Pearson, R.F.2
Moller, T.3
Valentin-Hansen, P.4
Brennan, R.G.5
-
54
-
-
0242380623
-
Sm-like proteins in Eubacteria: The crystal structure of the Hfq protein from Escherichia coli
-
Sauter C, Basquin J, Suck D: Sm-like proteins in Eubacteria: the crystal structure of the Hfq protein from Escherichia coli. Nucleic Acids Res 2003, 31:4091-4098.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 4091-4098
-
-
Sauter, C.1
Basquin, J.2
Suck, D.3
-
55
-
-
0035902835
-
Solution structure and function of a conserved protein SP14.3 encoded by an essential Streptococcus pneumoniae gene
-
Yu L, Gunasekera AH, Mack J, Olejniczak ET, Chovan LE, Ruan X, Towne DL, Lerner CG, Fesik SW: Solution structure and function of a conserved protein SP14.3 encoded by an essential Streptococcus pneumoniae gene. J Mol Biol 2001, 311:593-604.
-
(2001)
J. Mol. Biol.
, vol.311
, pp. 593-604
-
-
Yu, L.1
Gunasekera, A.H.2
Mack, J.3
Olejniczak, E.T.4
Chovan, L.E.5
Ruan, X.6
Towne, D.L.7
Lerner, C.G.8
Fesik, S.W.9
-
56
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25: 389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
57
-
-
0033574503
-
Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches
-
Aravind L, Koonin EV: Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches. J Mol Biol 1999, 287:1023-1040.
-
(1999)
J. Mol. Biol.
, vol.287
, pp. 1023-1040
-
-
Aravind, L.1
Koonin, E.V.2
-
58
-
-
0034623005
-
T-Coffee: A novel method for fast and accurate multiple sequence alignment
-
Notredame C, Higgins DG, Heringa J: T-Coffee: A novel method for fast and accurate multiple sequence alignment. J Mol Biol 2000, 302:205-217.
-
(2000)
J. Mol. Biol.
, vol.302
, pp. 205-217
-
-
Notredame, C.1
Higgins, D.G.2
Heringa, J.3
-
59
-
-
0037433034
-
PCMA: Fast and accurate multiple sequence alignment based on profile consistency
-
Pei J, Sadreyev R, Grishin NV: PCMA: fast and accurate multiple sequence alignment based on profile consistency. Bioinformatics 2003, 19:427-428.
-
(2003)
Bioinformatics
, vol.19
, pp. 427-428
-
-
Pei, J.1
Sadreyev, R.2
Grishin, N.V.3
-
60
-
-
9444238963
-
SEALS package
-
A
-
A: SEALS package. [http://www.ncbi.nlm.nih.gov/CBBresearch/Walker/SEALS/index.html].
-
-
-
-
61
-
-
0031473847
-
SWISS-MODEL and the Swiss-Pdb-Viewer: An environment for comparative protein modeling
-
Guex N, Peitsch MC: SWISS-MODEL and the Swiss-Pdb-Viewer: an environment for comparative protein modeling. Electrophoresis 1997, 18: 2714-2723.
-
(1997)
Electrophoresis
, vol.18
, pp. 2714-2723
-
-
Guex, N.1
Peitsch, M.C.2
-
63
-
-
9444294372
-
Pymol
-
A
-
A: Pymol. [http://www.pymol.org].
-
-
-
-
64
-
-
9444267898
-
PovRay
-
A
-
A: PovRay. [http://www.povray.org/].
-
-
-
-
65
-
-
0030038634
-
Topology prediction for helical transmembrane proteins at 86% accuracy
-
Rost B, Fariselli P, Casadio R: Topology prediction for helical transmembrane proteins at 86% accuracy. Protein Sci 1996, 5:1704-1718.
-
(1996)
Protein Sci.
, vol.5
, pp. 1704-1718
-
-
Rost, B.1
Fariselli, P.2
Casadio, R.3
-
66
-
-
0027291015
-
Prediction of protein secondary structure at better than 70% accuracy
-
Rost B, Sander C: Prediction of protein secondary structure at better than 70% accuracy. J Mol Biol 1993, 232: 84-599.
-
(1993)
J. Mol. Biol.
, vol.232
, pp. 584-599
-
-
Rost, B.1
Sander, C.2
-
67
-
-
9444274621
-
-
A: BLASTCLUST [ftp://ftp.ncbi.nih.gov/blast/documents/blastclust.txt]
-
A: BLASTCLUST. [ftp://ftp.ncbi.nih.gov/blast/documents/blastclust.txt].
-
-
-
-
68
-
-
0036205377
-
TREE-PUZZLE: Maximum likelihood phylogenetic analysis using quartets and parallel computing
-
Schmidt HA, Strimmer K, Vingron M, von Haeseler A: TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 2002, 18: 502-504.
-
(2002)
Bioinformatics
, vol.18
, pp. 502-504
-
-
Schmidt, H.A.1
Strimmer, K.2
Vingron, M.3
von Haeseler, A.4
-
69
-
-
0033984609
-
Weighted neighbor joining: A likelihood-based approach to distance-based phylogeny reconstruction
-
Bruno WJ, Socci ND, Halpern AL: Weighted neighbor joining: a likelihood-based approach to distance-based phylogeny reconstruction Mol Biol Evol 2000, 17: 189-197.
-
(2000)
Mol. Biol. Evol.
, vol.17
, pp. 189-197
-
-
Bruno, W.J.1
Socci, N.D.2
Halpern, A.L.3
-
70
-
-
0000122573
-
PHYLIP - Phylogeny Inference Package (Version 3.2)
-
Felsenstein J: PHYLIP - Phylogeny Inference Package (Version 3.2). Cladistics 1989, 5:164-166.
-
(1989)
Cladistics
, vol.5
, pp. 164-166
-
-
Felsenstein, J.1
-
71
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon S, Gascuel O: A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 2003, 52:696-704.
-
(2003)
Syst. Biol.
, vol.52
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
72
-
-
9444285621
-
-
B
-
B: Gene Neighborhood Tables. [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Genome].
-
Gene Neighborhood Tables
-
-
|