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Items: 1 to 20 of 52

1.

The B73 maize genome: complexity, diversity, and dynamics.

Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK.

Science. 2009 Nov 20;326(5956):1112-5. doi: 10.1126/science.1178534. Erratum in: Science. 2012 Aug 31;337(6098):1040.

2.

PAVE: program for assembling and viewing ESTs.

Soderlund C, Johnson E, Bomhoff M, Descour A.

BMC Genomics. 2009 Aug 26;10:400. doi: 10.1186/1471-2164-10-400.

3.

The Sorghum bicolor genome and the diversification of grasses.

Paterson AH, Bowers JE, Bruggmann R, Dubchak I, Grimwood J, Gundlach H, Haberer G, Hellsten U, Mitros T, Poliakov A, Schmutz J, Spannagl M, Tang H, Wang X, Wicker T, Bharti AK, Chapman J, Feltus FA, Gowik U, Grigoriev IV, Lyons E, Maher CA, Martis M, Narechania A, Otillar RP, Penning BW, Salamov AA, Wang Y, Zhang L, Carpita NC, Freeling M, Gingle AR, Hash CT, Keller B, Klein P, Kresovich S, McCann MC, Ming R, Peterson DG, Mehboob-ur-Rahman, Ware D, Westhoff P, Mayer KF, Messing J, Rokhsar DS.

Nature. 2009 Jan 29;457(7229):551-6. doi: 10.1038/nature07723.

PMID:
19189423
4.

GenBank.

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW.

Nucleic Acids Res. 2009 Jan;37(Database issue):D26-31. doi: 10.1093/nar/gkn723. Epub 2008 Oct 21.

5.

Insights into corn genes derived from large-scale cDNA sequencing.

Alexandrov NN, Brover VV, Freidin S, Troukhan ME, Tatarinova TV, Zhang H, Swaller TJ, Lu YP, Bouck J, Flavell RB, Feldmann KA.

Plant Mol Biol. 2009 Jan;69(1-2):179-94. doi: 10.1007/s11103-008-9415-4. Epub 2008 Oct 21.

6.

Distinctive transcriptome responses to adverse environmental conditions in Zea mays L.

Fernandes J, Morrow DJ, Casati P, Walbot V.

Plant Biotechnol J. 2008 Oct;6(8):782-98. doi: 10.1111/j.1467-7652.2008.00360.x. Epub 2008 Jul 8.

7.

PlantGDB: a resource for comparative plant genomics.

Duvick J, Fu A, Muppirala U, Sabharwal M, Wilkerson MD, Lawrence CJ, Lushbough C, Brendel V.

Nucleic Acids Res. 2008 Jan;36(Database issue):D959-65. Epub 2007 Dec 6.

8.

The Gene Ontology project in 2008.

Gene Ontology Consortium.

Nucleic Acids Res. 2008 Jan;36(Database issue):D440-4. Epub 2007 Nov 4.

9.

Gramene: a growing plant comparative genomics resource.

Liang C, Jaiswal P, Hebbard C, Avraham S, Buckler ES, Casstevens T, Hurwitz B, McCouch S, Ni J, Pujar A, Ravenscroft D, Ren L, Spooner W, Tecle I, Thomason J, Tung CW, Wei X, Yap I, Youens-Clark K, Ware D, Stein L.

Nucleic Acids Res. 2008 Jan;36(Database issue):D947-53. Epub 2007 Nov 4.

10.

PlantTFDB: a comprehensive plant transcription factor database.

Guo AY, Chen X, Gao G, Zhang H, Zhu QH, Liu XC, Zhong YF, Gu X, He K, Luo J.

Nucleic Acids Res. 2008 Jan;36(Database issue):D966-9. Epub 2007 Oct 12.

11.

Differential gene expression and subcellular targeting of Arabidopsis glutathione S-transferase F8 is achieved through alternative transcription start sites.

Thatcher LF, Carrie C, Andersson CR, Sivasithamparam K, Whelan J, Singh KB.

J Biol Chem. 2007 Sep 28;282(39):28915-28. Epub 2007 Jul 31.

12.

Physical and genetic structure of the maize genome reflects its complex evolutionary history.

Wei F, Coe E, Nelson W, Bharti AK, Engler F, Butler E, Kim H, Goicoechea JL, Chen M, Lee S, Fuks G, Sanchez-Villeda H, Schroeder S, Fang Z, McMullen M, Davis G, Bowers JE, Paterson AH, Schaeffer M, Gardiner J, Cone K, Messing J, Soderlund C, Wing RA.

PLoS Genet. 2007 Jul;3(7):e123.

13.

The TIGR Rice Genome Annotation Resource: improvements and new features.

Ouyang S, Zhu W, Hamilton J, Lin H, Campbell M, Childs K, Thibaud-Nissen F, Malek RL, Lee Y, Zheng L, Orvis J, Haas B, Wortman J, Buell CR.

Nucleic Acids Res. 2007 Jan;35(Database issue):D883-7. Epub 2006 Dec 1.

14.

Nearly identical paralogs: implications for maize (Zea mays L.) genome evolution.

Emrich SJ, Li L, Wen TJ, Yandeau-Nelson MD, Fu Y, Guo L, Chou HH, Aluru S, Ashlock DA, Schnable PS.

Genetics. 2007 Jan;175(1):429-39. Epub 2006 Nov 16.

15.

Remarkable variation in maize genome structure inferred from haplotype diversity at the bz locus.

Wang Q, Dooner HK.

Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17644-9. Epub 2006 Nov 13.

16.

Annotation and expression profile analysis of 2073 full-length cDNAs from stress-induced maize (Zea mays L.) seedlings.

Jia J, Fu J, Zheng J, Zhou X, Huai J, Wang J, Wang M, Zhang Y, Chen X, Zhang J, Zhao J, Su Z, Lv Y, Wang G.

Plant J. 2006 Dec;48(5):710-27. Epub 2006 Oct 31.

17.

The genome of black cottonwood, Populus trichocarpa (Torr. & Gray).

Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, Blaudez D, Boerjan W, Brun A, Brunner A, Busov V, Campbell M, Carlson J, Chalot M, Chapman J, Chen GL, Cooper D, Coutinho PM, Couturier J, Covert S, Cronk Q, Cunningham R, Davis J, Degroeve S, Déjardin A, Depamphilis C, Detter J, Dirks B, Dubchak I, Duplessis S, Ehlting J, Ellis B, Gendler K, Goodstein D, Gribskov M, Grimwood J, Groover A, Gunter L, Hamberger B, Heinze B, Helariutta Y, Henrissat B, Holligan D, Holt R, Huang W, Islam-Faridi N, Jones S, Jones-Rhoades M, Jorgensen R, Joshi C, Kangasjärvi J, Karlsson J, Kelleher C, Kirkpatrick R, Kirst M, Kohler A, Kalluri U, Larimer F, Leebens-Mack J, Leplé JC, Locascio P, Lou Y, Lucas S, Martin F, Montanini B, Napoli C, Nelson DR, Nelson C, Nieminen K, Nilsson O, Pereda V, Peter G, Philippe R, Pilate G, Poliakov A, Razumovskaya J, Richardson P, Rinaldi C, Ritland K, Rouzé P, Ryaboy D, Schmutz J, Schrader J, Segerman B, Shin H, Siddiqui A, Sterky F, Terry A, Tsai CJ, Uberbacher E, Unneberg P, Vahala J, Wall K, Wessler S, Yang G, Yin T, Douglas C, Marra M, Sandberg G, Van de Peer Y, Rokhsar D.

Science. 2006 Sep 15;313(5793):1596-604.

18.

SyMAP: A system for discovering and viewing syntenic regions of FPC maps.

Soderlund C, Nelson W, Shoemaker A, Paterson A.

Genome Res. 2006 Sep;16(9):1159-68.

19.

Analysis of slipped sequences in EST projects.

Baudet C, Dias Z.

Genet Mol Res. 2006 Mar 31;5(1):169-81.

20.

DRTF: a database of rice transcription factors.

Gao G, Zhong Y, Guo A, Zhu Q, Tang W, Zheng W, Gu X, Wei L, Luo J.

Bioinformatics. 2006 May 15;22(10):1286-7. Epub 2006 Mar 21.

PMID:
16551659

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