-
1
-
-
0033618555
-
Detecting protein function and protein-protein interactions from genome sequences
-
PID: 10427000, COI: 1:CAS:528:DyaK1MXltVehtbg%3D
-
Marcotte EM, Pellegrini M, Ng HL, Rice DW, Yeates TO, Eisenberg D: Detecting protein function and protein-protein interactions from genome sequences. Science. 1999, 285: 751-753. 10.1126/science.285.5428.751. DOI: 10.1126/science.285.5428.751
-
(1999)
Science
, vol.285
, pp. 751-753
-
-
Marcotte, E.M.1
Pellegrini, M.2
Ng, H.L.3
Rice, D.W.4
Yeates, T.O.5
Eisenberg, D.6
-
2
-
-
0033940941
-
Gene and context: integrative approaches to genome analysis
-
PID: 10829232, COI: 1:CAS:528:DC%2BD3cXltFSqs7o%3D
-
Huynen MJ, Snel B: Gene and context: integrative approaches to genome analysis. Adv Protein Chem. 2000, 54: 345-379. DOI: 10.1016/S0065-3233(00)54010-8
-
(2000)
Adv Protein Chem
, vol.54
, pp. 345-379
-
-
Huynen, M.J.1
Snel, B.2
-
3
-
-
0034940467
-
Genes linked by fusion events are generally of the same functional category: a systematic analysis of 30 microbial genomes
-
PID: 11438739, COI: 1:CAS:528:DC%2BD3MXlt1KntLw%3D
-
Yanai I, Derti A, DeLisi C: Genes linked by fusion events are generally of the same functional category: a systematic analysis of 30 microbial genomes. Proc Natl Acad Sci USA. 2001, 98: 7940-7945. 10.1073/pnas.141236298. DOI: 10.1073/pnas.141236298
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 7940-7945
-
-
Yanai, I.1
Derti, A.2
DeLisi, C.3
-
4
-
-
0027056677
-
Communication modules in bacterial signaling proteins
-
PID: 1482126, COI: 1:CAS:528:DyaK3sXksVCktrc%3D
-
Parkinson JS, Kofoid EC: Communication modules in bacterial signaling proteins. Annu Rev Genet. 1992, 26: 71-112. 10.1146/annurev.ge.26.120192.000443. DOI: 10.1146/annurev.ge.26.120192.000443
-
(1992)
Annu Rev Genet
, vol.26
, pp. 71-112
-
-
Parkinson, J.S.1
Kofoid, E.C.2
-
5
-
-
0030950024
-
Modular multidomain phosphoryl transfer proteins of bacteria
-
PID: 9204284, COI: 1:CAS:528:DyaK2sXjvFWjsr8%3D
-
Reizer J, Saier MH: Modular multidomain phosphoryl transfer proteins of bacteria. Curr Opin Struct Biol. 1997, 7: 407-415. 10.1016/S0959-440X(97)80059-0. DOI: 10.1016/S0959-440X(97)80059-0
-
(1997)
Curr Opin Struct Biol
, vol.7
, pp. 407-415
-
-
Reizer, J.1
Saier, M.H.2
-
6
-
-
0034614490
-
Signaling - 2000 and beyond
-
PID: 10647936, COI: 1:CAS:528:DC%2BD3cXks1Crtg%3D%3D
-
Hunter T: Signaling - 2000 and beyond. Cell. 2000, 100: 113-127. DOI: 10.1016/S0092-8674(00)81688-8
-
(2000)
Cell
, vol.100
, pp. 113-127
-
-
Hunter, T.1
-
7
-
-
0034625235
-
The impact of comparative genomics on our understanding of evolution
-
PID: 10892642, COI: 1:CAS:528:DC%2BD3cXkt1Wrsbg%3D
-
Koonin EV, Aravind L, Kondrashov AS: The impact of comparative genomics on our understanding of evolution. Cell. 2000, 101: 573-576. DOI: 10.1016/S0092-8674(00)80867-3
-
(2000)
Cell
, vol.101
, pp. 573-576
-
-
Koonin, E.V.1
Aravind, L.2
Kondrashov, A.S.3
-
8
-
-
0034708444
-
Comparative genomics of the eukaryotes
-
PID: 10731134, COI: 1:CAS:528:DC%2BD3cXitlSnsrk%3D
-
Rubin GM, Yandell MD, Wortman JR, Gabor Miklos GL, Nelson CR, Hariharan IK, Fortini ME, Li PW, Apweiler R, Fleischmann W, et al: Comparative genomics of the eukaryotes. Science. 2000, 287: 2204-2215. 10.1126/science.287.5461.2204. DOI: 10.1126/science.287.5461.2204
-
(2000)
Science
, vol.287
, pp. 2204-2215
-
-
Rubin, G.M.1
Yandell, M.D.2
Wortman, J.R.3
Gabor Miklos, G.L.4
Nelson, C.R.5
Hariharan, I.K.6
Fortini, M.E.7
Li, P.W.8
Apweiler, R.9
Fleischmann, W.10
-
9
-
-
2042437650
-
Initial sequencing and analysis of the human genome
-
International Human Genome Consortium: Initial sequencing and analysis of the human genome. Nature. 2001, 409: 860-921. 10.1038/35057062. DOI: 10.1038/35057062
-
(2001)
Nature
, vol.409
, pp. 860-921
-
-
-
10
-
-
0033523989
-
Protein interaction maps for complete genomes based on gene fusion events
-
PID: 10573422, COI: 1:CAS:528:DyaK1MXntlCms7s%3D
-
Enright AJ, Ilipoulos I, Kyrpides NC, Ouzounis CA: Protein interaction maps for complete genomes based on gene fusion events. Nature. 1999, 402: 86-90. DOI: 10.1038/47056
-
(1999)
Nature
, vol.402
, pp. 86-90
-
-
Enright, A.J.1
Ilipoulos, I.2
Kyrpides, N.C.3
Ouzounis, C.A.4
-
11
-
-
0034084865
-
Who's your neighbor? New computational approaches for functional genomics
-
PID: 10835597, COI: 1:CAS:528:DC%2BD3cXkt12gtr8%3D
-
Galperin MY, Koonin EV: Who's your neighbor? New computational approaches for functional genomics. Nat Biotechnol. 2000, 18: 609-613. 10.1038/76443. DOI: 10.1038/76443
-
(2000)
Nat Biotechnol
, vol.18
, pp. 609-613
-
-
Galperin, M.Y.1
Koonin, E.V.2
-
12
-
-
0033621536
-
Genome evolution: gene fusion versus gene fission
-
PID: 10637623, COI: 1:CAS:528:DC%2BD3cXlsFShsA%3D%3D
-
Snel B, Bork P, Huynen M: Genome evolution: gene fusion versus gene fission. Trends Genet. 2000, 16: 9-11. 10.1016/S0168-9525(99)01924-1. DOI: 10.1016/S0168-9525(99)01924-1
-
(2000)
Trends Genet
, vol.16
, pp. 9-11
-
-
Snel, B.1
Bork, P.2
Huynen, M.3
-
13
-
-
0348044549
-
Genome trees constructed using five different approaches suggest new major bacterial clades
-
PID: 11734060, COI: 1:STN:280:DC%2BD3srgs1Wruw%3D%3D
-
Wolf YI, Rogozin IB, Grishin NV, Tatusov RL, Koonin EV: Genome trees constructed using five different approaches suggest new major bacterial clades. BMC Evol Biol. 2001, 1: 8-10.1186/1471-2148-1-8. DOI: 10.1186/1471-2148-1-8
-
(2001)
BMC Evol Biol
, vol.1
, pp. 8
-
-
Wolf, Y.I.1
Rogozin, I.B.2
Grishin, N.V.3
Tatusov, R.L.4
Koonin, E.V.5
-
14
-
-
0030982247
-
A molecular view of microbial diversity and the biosphere
-
PID: 9115194, COI: 1:CAS:528:DyaK2sXivFOltLc%3D
-
Pace NR: A molecular view of microbial diversity and the biosphere. Science. 1997, 276: 734-740. 10.1126/science.276.5313.734. DOI: 10.1126/science.276.5313.734
-
(1997)
Science
, vol.276
, pp. 734-740
-
-
Pace, N.R.1
-
15
-
-
0033043696
-
Is there a phylogenetic signal in prokaryote proteins?
-
PID: 10368438, COI: 1:CAS:528:DyaK1MXkt1Oktrk%3D
-
Teichmann SA, Mitchison G: Is there a phylogenetic signal in prokaryote proteins?. J Mol Evol. 1999, 49: 98-107. DOI: 10.1007/PL00006538
-
(1999)
J Mol Evol
, vol.49
, pp. 98-107
-
-
Teichmann, S.A.1
Mitchison, G.2
-
16
-
-
0025300402
-
Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya
-
PID: 2112744, COI: 1:STN:280:DyaK3c3otVCiug%3D%3D
-
Woese CR, Kandler O, Wheelis ML: Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci USA. 1990, 87: 4576-4579. DOI: 10.1073/pnas.87.12.4576
-
(1990)
Proc Natl Acad Sci USA
, vol.87
, pp. 4576-4579
-
-
Woese, C.R.1
Kandler, O.2
Wheelis, M.L.3
-
17
-
-
0031470387
-
Archaea and the prokaryote-to-eukaryote transition
-
PID: 9409149, COI: 1:CAS:528:DyaK2sXotVymsbk%3D
-
Brown JR, Doolittle WF: Archaea and the prokaryote-to-eukaryote transition. Microbiol Mol Biol Rev. 1997, 61: 456-502.
-
(1997)
Microbiol Mol Biol Rev
, vol.61
, pp. 456-502
-
-
Brown, J.R.1
Doolittle, W.F.2
-
18
-
-
0030660581
-
A genomic perspective on protein families
-
PID: 9381173, COI: 1:CAS:528:DyaK2sXmvVOrsL0%3D
-
Tatusov RL, Koonin EV, Lipman DJ: A genomic perspective on protein families. Science. 1997, 278: 631-637. 10.1126/science.278.5338.631. DOI: 10.1126/science.278.5338.631
-
(1997)
Science
, vol.278
, pp. 631-637
-
-
Tatusov, R.L.1
Koonin, E.V.2
Lipman, D.J.3
-
19
-
-
0035162592
-
The COG database: new developments in phylogenetic classification of proteins from complete genomes
-
PID: 11125040, COI: 1:CAS:528:DC%2BD3MXjtlWnsLo%3D
-
Tatusov RL, Natale DA, Garkavtsev IV, Tatusova TA, Shankavaram UT, Rao BS, Kiryutin B, Galperin MY, Fedorova ND, Koonin EV: The COG database: new developments in phylogenetic classification of proteins from complete genomes. Nucleic Acids Res. 2001, 29: 22-28. 10.1093/nar/29.1.22. DOI: 10.1093/nar/29.1.22
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 22-28
-
-
Tatusov, R.L.1
Natale, D.A.2
Garkavtsev, I.V.3
Tatusova, T.A.4
Shankavaram, U.T.5
Rao, B.S.6
Kiryutin, B.7
Galperin, M.Y.8
Fedorova, N.D.9
Koonin, E.V.10
-
20
-
-
0030868589
-
Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea
-
PID: 9379893, COI: 1:CAS:528:DyaK2sXmtFegsbk%3D
-
Koonin EV, Mushegian AR, Galperin MY, Walker DR: Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea. Mol Microbiol. 1997, 25: 619-637. 10.1046/j.1365-2958.1997.4821861.x. DOI: 10.1046/j.1365-2958.1997.4821861.x
-
(1997)
Mol Microbiol
, vol.25
, pp. 619-637
-
-
Koonin, E.V.1
Mushegian, A.R.2
Galperin, M.Y.3
Walker, D.R.4
-
21
-
-
0031736121
-
Evidence for massive gene exchange between archaeal and bacterial hyperthermophiles
-
PID: 9825671, COI: 1:CAS:528:DyaK1cXns1ynur8%3D
-
Aravind L, Tatusov RL, Wolf YI, Walker DR, Koonin EV: Evidence for massive gene exchange between archaeal and bacterial hyperthermophiles. Trends Genet. 1998, 14: 442-444. 10.1016/S0168-9525(98)01553-4. DOI: 10.1016/S0168-9525(98)01553-4
-
(1998)
Trends Genet
, vol.14
, pp. 442-444
-
-
Aravind, L.1
Tatusov, R.L.2
Wolf, Y.I.3
Walker, D.R.4
Koonin, E.V.5
-
22
-
-
0033609333
-
Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima
-
PID: 10360571, COI: 1:CAS:528:DyaK1MXjs1WnsLo%3D
-
Nelson KE, Clayton RA, Gill SR, Gwinn ML, Dodson RJ, Haft DH, Hickey EK, Peterson JD, Nelson WC, Ketchum KA, et al: Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima. Nature. 1999, 399: 323-329. 10.1038/20601. DOI: 10.1038/20601
-
(1999)
Nature
, vol.399
, pp. 323-329
-
-
Nelson, K.E.1
Clayton, R.A.2
Gill, S.R.3
Gwinn, M.L.4
Dodson, R.J.5
Haft, D.H.6
Hickey, E.K.7
Peterson, J.D.8
Nelson, W.C.9
Ketchum, K.A.10
-
23
-
-
0033401933
-
Lateral genomics
-
PID: 10611671, COI: 1:CAS:528:DC%2BD3cXnt1Cnuw%3D%3D
-
Doolittle WF: Lateral genomics. Trends Cell Biol. 1999, 9: M5-M8. 10.1016/S0962-8924(99)01664-5. DOI: 10.1016/S0962-8924(99)01664-5
-
(1999)
Trends Cell Biol
, vol.9
, pp. M5-M8
-
-
Doolittle, W.F.1
-
24
-
-
0034780910
-
Horizontal gene transfer in prokaryotes: quantification and classification
-
PID: 11544372, COI: 1:CAS:528:DC%2BD3MXnslKjtbw%3D
-
Koonin EV, Makarova KS, Aravind L: Horizontal gene transfer in prokaryotes: quantification and classification. Annu Rev Microbiol. 2001, 55: 709-742. 10.1146/annurev.micro.55.1.709. DOI: 10.1146/annurev.micro.55.1.709
-
(2001)
Annu Rev Microbiol
, vol.55
, pp. 709-742
-
-
Koonin, E.V.1
Makarova, K.S.2
Aravind, L.3
-
25
-
-
0342768762
-
Archaeal and bacterial hyperthermophiles: horizontal gene exchange or common ancestry?
-
PID: 10431189, COI: 1:CAS:528:DyaK1MXltVemsbs%3D
-
Kyrpides NC, Olsen GJ: Archaeal and bacterial hyperthermophiles: horizontal gene exchange or common ancestry?. Trends Genet. 1999, 15: 298-299. 10.1016/S0168-9525(99)01811-9. DOI: 10.1016/S0168-9525(99)01811-9
-
(1999)
Trends Genet
, vol.15
, pp. 298-299
-
-
Kyrpides, N.C.1
Olsen, G.J.2
-
26
-
-
0033533618
-
Thermotogaheats up lateral gene transfer
-
PID: 10531001, COI: 1:CAS:528:DyaK1MXmslegu70%3D
-
Logsdon JM, Faguy DM: Thermotoga heats up lateral gene transfer. Curr Biol. 1999, 9: R747-R751. 10.1016/S0960-9822(99)80474-6. DOI: 10.1016/S0960-9822(99)80474-6
-
(1999)
Curr Biol
, vol.9
, pp. R747-R751
-
-
Logsdon, J.M.1
Faguy, D.M.2
-
27
-
-
0032169271
-
Conservation of gene order: a fingerprint of proteins that physically interact
-
PID: 9787636, COI: 1:CAS:528:DyaK1cXmsVWmtrw%3D
-
Dandekar T, Snel B, Huynen M, Bork P: Conservation of gene order: a fingerprint of proteins that physically interact. Trends Biochem Sci. 1998, 23: 324-328. 10.1016/S0968-0004(98)01274-2. DOI: 10.1016/S0968-0004(98)01274-2
-
(1998)
Trends Biochem Sci
, vol.23
, pp. 324-328
-
-
Dandekar, T.1
Snel, B.2
Huynen, M.3
Bork, P.4
-
28
-
-
0035085816
-
Genome alignment, evolution of prokaryotic genome organization and prediction of gene function using genomic context
-
PID: 11230160, COI: 1:CAS:528:DC%2BD3MXhvVOnsbg%3D
-
Wolf YI, Rogozin IB, Kondrashov AS, Koonin EV: Genome alignment, evolution of prokaryotic genome organization and prediction of gene function using genomic context. Genome Res. 2001, 11: 356-372. 10.1101/gr.GR-1619R. DOI: 10.1101/gr.GR-1619R
-
(2001)
Genome Res
, vol.11
, pp. 356-372
-
-
Wolf, Y.I.1
Rogozin, I.B.2
Kondrashov, A.S.3
Koonin, E.V.4
-
29
-
-
0034623005
-
T-Coffee: A novel method for fast and accurate multiple sequence alignment
-
PID: 10964570, COI: 1:CAS:528:DC%2BD3cXmtVGntr8%3D
-
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. 10.1006/jmbi.2000.4042. DOI: 10.1006/jmbi.2000.4042
-
(2000)
J Mol Biol
, vol.302
, pp. 205-217
-
-
Notredame, C.1
Higgins, D.G.2
Heringa, J.3
-
30
-
-
0014211361
-
Construction of phylogenetic trees
-
PID: 5334057, COI: 1:CAS:528:DyaF2sXnt1Gnsw%3D%3D
-
Fitch WM, Margoliash E: Construction of phylogenetic trees. Science. 1967, 155: 279-284. DOI: 10.1126/science.155.3760.279
-
(1967)
Science
, vol.155
, pp. 279-284
-
-
Fitch, W.M.1
Margoliash, E.2
-
31
-
-
0029901637
-
Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods
-
PID: 8743697, COI: 1:CAS:528:DyaK28Xltl2nt7g%3D
-
Felsenstein J: Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods. Methods Enzymol. 1996, 266: 418-427. DOI: 10.1016/S0076-6879(96)66026-1
-
(1996)
Methods Enzymol
, vol.266
, pp. 418-427
-
-
Felsenstein, J.1
-
33
-
-
0025181359
-
Maximum likelihood inference of protein phylogeny and the origin of chloroplasts
-
COI: 1:CAS:528:DyaK3cXlt1yqtLw%3D
-
Kishino H, Miyata T, Hasegawa M: Maximum likelihood inference of protein phylogeny and the origin of chloroplasts. J Mol Evol. 1990, 31: 151-160. DOI: 10.1007/BF02109483
-
(1990)
J Mol Evol
, vol.31
, pp. 151-160
-
-
Kishino, H.1
Miyata, T.2
Hasegawa, M.3
|