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NemaPath: online exploration of KEGG-based metabolic pathways for nematodes.

Wylie T, Martin J, Abubucker S, Yin Y, Messina D, Wang Z, McCarter JP, Mitreva M.

BMC Genomics. 2008 Nov 4;9:525. doi: 10.1186/1471-2164-9-525.

2. a tool for navigating sequences from parasitic and free-living nematodes.

Wylie T, Martin JC, Dante M, Mitreva MD, Clifton SW, Chinwalla A, Waterston RH, Wilson RK, McCarter JP.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D423-6.

3. update 2008: improvements enabling more efficient data mining and comparative nematode genomics.

Martin J, Abubucker S, Wylie T, Yin Y, Wang Z, Mitreva M.

Nucleic Acids Res. 2009 Jan;37(Database issue):D571-8. doi: 10.1093/nar/gkn744.


EGENES: transcriptome-based plant database of genes with metabolic pathway information and expressed sequence tag indices in KEGG.

Masoudi-Nejad A, Goto S, Jauregui R, Ito M, Kawashima S, Moriya Y, Endo TR, Kanehisa M.

Plant Physiol. 2007 Jun;144(2):857-66.

5. update 2011: addition of data sets and tools featuring next-generation sequencing data.

Martin J, Abubucker S, Heizer E, Taylor CM, Mitreva M.

Nucleic Acids Res. 2012 Jan;40(Database issue):D720-8. doi: 10.1093/nar/gkr1194.


NEMBASE: a resource for parasitic nematode ESTs.

Parkinson J, Whitton C, Schmid R, Thomson M, Blaxter M.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D427-30.


NEMBASE4: the nematode transcriptome resource.

Elsworth B, Wasmuth J, Blaxter M.

Int J Parasitol. 2011 Jul;41(8):881-94. doi: 10.1016/j.ijpara.2011.03.009.


CGKB: an annotation knowledge base for cowpea (Vigna unguiculata L.) methylation filtered genomic genespace sequences.

Chen X, Laudeman TW, Rushton PJ, Spraggins TA, Timko MP.

BMC Bioinformatics. 2007 Apr 19;8:129.


Pan-phylum Comparison of Nematode Metabolic Potential.

Tyagi R, Rosa BA, Lewis WG, Mitreva M.

PLoS Negl Trop Dis. 2015 May 22;9(5):e0003788. doi: 10.1371/journal.pntd.0003788.


Desiccation survival in an Antarctic nematode: molecular analysis using expressed sequenced tags.

Adhikari BN, Wall DH, Adams BJ.

BMC Genomics. 2009 Feb 9;10:69. doi: 10.1186/1471-2164-10-69.


ESTree db: a tool for peach functional genomics.

Lazzari B, Caprera A, Vecchietti A, Stella A, Milanesi L, Pozzi C.

BMC Bioinformatics. 2005 Dec 1;6 Suppl 4:S16.


Mining nematode genome data for novel drug targets.

Foster JM, Zhang Y, Kumar S, Carlow CK.

Trends Parasitol. 2005 Mar;21(3):101-4. Review.


Gallus GBrowse: a unified genomic database for the chicken.

Schmidt CJ, Romanov M, Ryder O, Magrini V, Hickenbotham M, Glasscock J, McGrath S, Mardis E, Stein LD.

Nucleic Acids Res. 2008 Jan;36(Database issue):D719-23.


WormBase 2016: expanding to enable helminth genomic research.

Howe KL, Bolt BJ, Cain S, Chan J, Chen WJ, Davis P, Done J, Down T, Gao S, Grove C, Harris TW, Kishore R, Lee R, Lomax J, Li Y, Muller HM, Nakamura C, Nuin P, Paulini M, Raciti D, Schindelman G, Stanley E, Tuli MA, Van Auken K, Wang D, Wang X, Williams G, Wright A, Yook K, Berriman M, Kersey P, Schedl T, Stein L, Sternberg PW.

Nucleic Acids Res. 2016 Jan 4;44(D1):D774-80. doi: 10.1093/nar/gkv1217.


Generation and analysis of a 29,745 unique Expressed Sequence Tags from the Pacific oyster (Crassostrea gigas) assembled into a publicly accessible database: the GigasDatabase.

Fleury E, Huvet A, Lelong C, de Lorgeril J, Boulo V, Gueguen Y, Bachère E, Tanguy A, Moraga D, Fabioux C, Lindeque P, Shaw J, Reinhardt R, Prunet P, Davey G, Lapègue S, Sauvage C, Corporeau C, Moal J, Gavory F, Wincker P, Moreews F, Klopp C, Mathieu M, Boudry P, Favrel P.

BMC Genomics. 2009 Jul 29;10:341. doi: 10.1186/1471-2164-10-341.


LeishCyc: a biochemical pathways database for Leishmania major.

Doyle MA, MacRae JI, De Souza DP, Saunders EC, McConville MJ, Likić VA.

BMC Syst Biol. 2009 Jun 5;3:57. doi: 10.1186/1752-0509-3-57.


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.

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