GSC: Publications

View is: All		278 entries

1.	Barrière A, Yang SP, Pekarek E, Thomas CG, Haag ES, Ruvinsky I.	PubMed
	Detecting heterozygosity in shotgun genome assemblies: Lessons from obligately outcrossing nematodes.
	Genome Res. 2009 Mar;19(3):470-80. Epub 2009 Feb 9.
	top


2.	Whittington CM, Koh JM, Warren WC, Papenfuss AT, Torres AM, Kuchel PW, Belov K.	PubMed
	Understanding and utilising mammalian venom via a platypus venom transcriptome.
	J Proteomics. 2009 Mar 6;72(2):155-64. Epub 2008 Dec 25.
	top


3.	Clifton SW, Mitreva M.	PubMed
	Strategies for Undertaking Expressed Sequence Tag (EST) Projects.
	Methods Mol Biol. 2009;533:1-20.
	top


4.	Mitreva M, Mardis ER.	PubMed
	Large-Scale Sequencing and Analytical Processing of ESTs.
	Methods Mol Biol. 2009;533:1-35.
	top


5.	Marques-Bonet T, Kidd JM, Ventura M, Graves TA, Cheng Z, Hillier LW, Jiang Z, ...	PubMed
	A burst of segmental duplications in the genome of the African great ape ancestor.
	Nature. 2009 Feb 12;457(7231):877-81.
	top


6.	Elling AA, Mitreva M, Gai X, Martin J, Recknor J, Davis EL, Hussey RS, ...	PubMed
	Sequence mining and transcript profiling to explore cyst nematode parasitism.
	BMC Genomics. 2009 Jan 30;10:58.
	top


7.	Wang Z, Martin J, Abubucker S, Yin Y, Gasser RB, Mitreva M.	PubMed
	Systematic analysis of insertions and deletions specific to nematode proteins and their proposed functional and evolutionary relevance.
	BMC Evol Biol. 2009 Jan 28;9:23.
	top


8.	Martin J, Abubucker S, Wylie T, Yin Y, Wang Z, Mitreva M.	PubMed
	Nematode.net update 2008: improvements enabling more efficient data mining and comparative nematode genomics.
	Nucleic Acids Res. 2009 Jan;37(Database issue):D571-8. Epub 2008 Oct 21.
	top


9.	Coghlan A, Fiedler TJ, McKay SJ, Flicek P, Harris TW, Blasiar D, Consortium TN, ...	PubMed
	nGASP - the nematode genome annotation assessment project.
	BMC Bioinformatics. 2008 Dec 19;9(1):549. [Epub ahead of print]
	top


10.	Sharp TV, Al-Attar A, Foxler DE, Ding L, de A Vallim TQ, Zhang Y, Nijmeh HS, ...	PubMed
	The chromosome 3p21.3-encoded gene, LIMD1, is a critical tumor suppressor involved in human lung cancer development.
	Proc Natl Acad Sci U S A. 2008 Dec 16;105(50):19932-7. Epub 2008 Dec 5.
	top


11.	Kidd JM, Cheng Z, Graves T, Wilson R, Eichler EE.	PubMed
	Haplotype sorting using human fosmid clone end-sequence pairs.
	Genome Res. 2008 Dec;18(12):2016-23. Epub 2008 Oct 3.
	top


12.	Wang X, Sun Q, McGrath SD, Mardis ER, Soloway PD, Clark AG.	PubMed
	Transcriptome-wide identification of novel imprinted genes in neonatal mouse brain.
	PLoS ONE. 2008;3(12):e3839. Epub 2008 Dec 4.
	top


13.	Girirajan S, Chen L, Graves T, Marques T, Ventura M, Fronick C, Fulton L, ...	PubMed
	Sequencing human-gibbon breakpoints of synteny reveals mosaic new insertions at rearrangement sites.
	Genome Res. 2008 Nov 24. [Epub ahead of print]
	top


14.	Ley TJ, Mardis ER, Ding L, Fulton B, McLellan MD, Chen K, Dooling D, ...	PubMed
	DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome.
	Nature. 2008 Nov 6;456(7218):66-72.
	top


15.	Wylie T, Martin J, Abubucker S, Yin Y, Messina D, Wang Z, McCarter JP, ...	PubMed
	NemaPath: online exploration of KEGG-based metabolic pathways for nematodes.
	BMC Genomics. 2008 Nov 4;9:525.
	top


16.	Cancer Genome Atlas Research Network.	PubMed
	Comprehensive genomic characterization defines human glioblastoma genes and core pathways.
	Nature. 2008 Oct 23;455(7216):1061-8. Epub 2008 Sep 4.
	top


17.	Ding L, Getz G, Wheeler DA, Mardis ER, McLellan MD, Cibulskis K, Sougnez C, ...	PubMed
	Somatic mutations affect key pathways in lung adenocarcinoma.
	Nature. 2008 Oct 23;455(7216):1069-75.
	top


18.	Dieterich C, Clifton SW, Schuster LN, Chinwalla A, Delehaunty K, Dinkelacker I, Fulton L, ...	PubMed
	The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism.
	Nat Genet. 2008 Oct;40(10):1193-8. Epub 2008 Sep 21.
	top


19.	Welsh EA, Liberton M, Stöckel J, Loh T, Elvitigala T, Wang C, Wollam A, ...	PubMed
	The genome of Cyanothece 51142, a unicellular diazotrophic cyanobacterium important in the marine nitrogen cycle.
	Proc Natl Acad Sci U S A. 2008 Sep 30;105(39):15094-9. Epub 2008 Sep 23.
	top


20.	Pearks Wilkerson AJ, Raudsepp T, Graves T, Albracht D, Warren W, Chowdhary BP, Skow LC, ...	PubMed
	Gene discovery and comparative analysis of X-degenerate genes from the domestic cat Y chromosome.
	Genomics. 2008 Aug 26. [Epub ahead of print]
	top


21.	Zody MC, Jiang Z, Fung HC, Antonacci F, Hillier LW, Cardone MF, Graves TA, ...	PubMed
	Evolutionary toggling of the MAPT 17q21.31 inversion region.
	Nat Genet. 2008 Aug 10. [Epub ahead of print]
	top


22.	Dolgosheina EV, Morin RD, Aksay G, Sahinalp SC, Magrini V, Mardis ER, Mattsson J, ...	PubMed
	Conifers have a unique small RNA silencing signature.
	RNA. 2008 Aug;14(8):1508-15. Epub 2008 Jun 19.
	top


23.	Mitreva M, Jasmer DP.	PubMed
	Advances in the sequencing of the genome of the adenophorean nematode Trichinella spiralis.
	Parasitology. 2008 Jul;135(8):869-80.
	top


24.	Patel VS, Cooper SJ, Deakin JE, Fulton B, Graves T, Warren WC, Wilson RK, ...	PubMed
	Platypus globin genes and flanking loci suggest a new insertional model for beta-globin evolution in birds and mammals.
	BMC Biol. 2008 Jul 25;6:34.
	top


25.	Marks JL, Gong Y, Chitale D, Golas B, McLellan MD, Kasai Y, Ding L, ...	PubMed
	Novel MEK1 mutation identified by mutational analysis of epidermal growth factor receptor signaling pathway genes in lung adenocarcinoma.
	Cancer Res. 2008 Jul 15;68(14):5524-8.
	top


26.	Mardis ER.	PubMed
	Next-generation DNA sequencing methods.
	Annu Rev Genomics Hum Genet. 2008;9:387-402.
	top


27.	Park JI, Semyonov J, Chang CL, Yi W, Warren W, Hsu SY.	PubMed
	Origin of INSL3-mediated testicular descent in therian mammals.
	Genome Res. 2008 Jun;18(6):974-85. Epub 2008 May 7.
	top


28.	Whittington CM, Papenfuss AT, Bansal P, Torres AM, Wong ES, Deakin JE, Graves T, ...	PubMed
	Defensins and the convergent evolution of platypus and reptile venom genes.
	Genome Res. 2008 Jun;18(6):986-94. Epub 2008 May 7.
	top


29.	Internal Medicine/Infectious Diseases Division, Washington University School of Medicine, Campus Mailbox 8051, 660 S. Euclid Avenue, St. Louis, MO 63110, USA.	PubMed
	Brugia malayi: whole genome amplification for genomic characterization of filarial parasites.
	Exp Parasitol. 2008 Jun;119(2):256-63. Epub 2008 Feb 19.
	top


30.	Pasieka TJ, Lu B, Crosby SD, Wylie KM, Morrison LA, Alexander DE, Menachery VD, ...	PubMed
	Herpes simplex virus virion host shutoff attenuates establishment of the antiviral state.
	J Virol. 2008 Jun;82(11):5527-35. Epub 2008 Mar 26.
	top


31.	Veyrunes F, Waters PD, Miethke P, Rens W, McMillan D, Alsop AE, Grützner F, ...	PubMed
	Bird-like sex chromosomes of platypus imply recent origin of mammal sex chromosomes.
	Genome Res. 2008 Jun;18(6):965-73. Epub 2008 May 7.
	top


32.	Haddad GE, Saunders L, Carles M, Crosby SD, del Monte F, Macgillivray TE, Semigran MJ, ...	PubMed
	Fingerprint profile of alcohol-associated heart failure in human hearts.
	Alcohol Clin Exp Res. 2008 May;32(5):814-21. Epub 2008 Mar 11.
	top


33.	Wendl MC, Wilson RK.	PubMed
	Aspects of coverage in medical DNA sequencing.
	BMC Bioinformatics. 2008 May 16;9:239.
	top


34.	Ordoñez GR, Hillier LW, Warren WC, Grützner F, López-Otín C, Puente XS.	PubMed
	Loss of genes implicated in gastric function during platypus evolution.
	Genome Biol. 2008;9(5):R81. Epub 2008 May 15.
	top


35.	Warren WC, Hillier LW, Marshall Graves JA, Birney E, Ponting CP, Grützner F, Belov K, ...	PubMed
	Genome analysis of the platypus reveals unique signatures of evolution.
	Nature. 2008 May 8;453(7192):175-83.
	top


36.	Xiang Z, Zhao Y, Mitaksov V, Fremont DH, Kasai Y, Molitoris A, Ries RE, ...	PubMed
	Identification of somatic JAK1 mutations in patients with acute myeloid leukemia.
	Blood. 2008 May 1;111(9):4809-12. Epub 2007 Dec 26.
	top


37.	Tomasson MH, Xiang Z, Walgren R, Zhao Y, Kasai Y, Miner T, Ries RE, ...	PubMed
	Somatic mutations and germline sequence variants in the expressed tyrosine kinase genes of patients with de novo acute myeloid leukemia.
	Blood. 2008 May 1;111(9):4797-808. Epub 2008 Feb 12.
	top


38.	Kidd JM, Cooper GM, Donahue WF, Hayden HS, Sampas N, Graves T, Hansen N, ...	PubMed
	Mapping and sequencing of structural variation from eight human genomes.
	Nature. 2008 May 1;453(7191):56-64.
	top


39.	Haddad GE, Saunders LJ, Crosby SD, Carles M, del Monte F, King K, Bristow MR, ...	PubMed
	Human cardiac-specific cDNA array for idiopathic dilated cardiomyopathy: sex-related differences.
	Physiol Genomics. 2008 Apr 22;33(2):267-77. Epub 2008 Feb 26.
	top


40.	Morin RD, Aksay G, Dolgosheina E, Ebhardt HA, Magrini V, Mardis ER, Sahinalp SC, ...	PubMed
	Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa.
	Genome Res. 2008 Apr;18(4):571-84. Epub 2008 Mar 6.
	top


41.	Turnbaugh PJ, Bäckhed F, Fulton L, Gordon JI.	PubMed
	Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome.
	Cell Host Microbe. 2008 Apr 17;3(4):213-23.
	top


42.	Van Tassell CP, Smith TP, Matukumalli LK, Taylor JF, Schnabel RD, Lawley CT, Haudenschild CD, ...	PubMed
	SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries.
	Nat Methods. 2008 Mar;5(3):247-52. Epub 2008 Feb 24.
	top


43.	Abubucker S, Martin J, Yin Y, Fulton L, Yang SP, Hallsworth-Pepin K, Johnston JS, ...	PubMed
	The canine hookworm genome: analysis and classification of Ancylostoma caninum survey sequences.
	Mol Biochem Parasitol. 2008 Feb;157(2):187-92. Epub 2007 Nov 9.
	top


44.	Hillier LW, Marth GT, Quinlan AR, Dooling D, Fewell G, Barnett D, Fox P, ...	PubMed
	Whole-genome sequencing and variant discovery in C. elegans.
	Nat Methods. 2008 Feb;5(2):183-8. Epub 2008 Jan 20.
	top


45.	Mardis ER.	PubMed
	The impact of next-generation sequencing technology on genetics.
	Trends Genet. 2008 Feb 8 [Epub ahead of print]
	top


46.	Drosophila 12 Genomes Consortium; Project Leaders, Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, ...	PubMed
	Evolution of genes and genomes on the Drosophila phylogeny.
	Nature. 2007 Nov 8;450(7167):203-218.
	top


47.	Weir BA, Woo MS, Getz G, Perner S, Ding L, Beroukhim R, Lin WM, ...	PubMed
	Characterizing the cancer genome in lung adenocarcinoma.
	Nature. 2007 Nov 4; [Epub ahead of print]
	top


48.	Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, ...	PubMed
	Genome-wide detection and characterization of positive selection in human populations.
	Nature. 2007 Oct 18;449(7164):913-8.
	top


49.	International HapMap Consortium, Frazer KA, Ballinger DG, Cox DR, Hinds DA, Stuve LL, Gibbs RA, ...	PubMed
	A second generation human haplotype map of over 3.1 million SNPs.
	Nature. 2007 Oct 18;449(7164):851-61.
	top


50.	Allen JO, Fauron CM, Minx P, Roark L, Oddiraju S, Lin GN, Meyer L, ...	PubMed
	Comparisons among two fertile and three male-sterile mitochondrial genomes of maize.
	Genetics. 2007 Oct;177(2):1173-92. Epub 2007 Jul 29.
	top


51.	Schmidt CJ, Romanov M, Ryder O, Magrini V, Hickenbotham M, Glasscock J, McGrath S, ...	PubMed
	Gallus GBrowse: a unified genomic database for the chicken.
	Nucleic Acids Res. 2007 Oct 11; [Epub ahead of print]
	top


52.	Elling AA, Mitreva M, Recknor J, Gai X, Martin J, Maier TR, McDermott JP, ...	PubMed
	Divergent evolution of arrested development in the dauer stage of Caenorhabditis elegans and the infective stage of Heterodera glycine.
	Genome Biol. 2007 Oct 5;8(10):R211 [Epub ahead of print]
	top


53.	Laha T, Loukas A, Wattanasatitarpa S, Somprakhon J, Kewgrai N, Sithithaworn P, Kaewkes S, ...	PubMed
	The bandit, a New DNA Transposon from a Hookworm-Possible Horizontal Genetic Transfer between Host and Parasite.
	PLoS Negl Trop Dis. 2007 Sep 27;1(1):e35.
	top


54.	Wendl MC.	PubMed
	H-index: however ranked, citations need context.
	Nature. 2007 Sep 27;449(7161):403.
	top


55.	Wendl MC, Smith S, Pohl CS, Dooling DJ, Chinwalla AT, Crouse K, Hepler T, ...	PubMed
	Design and implementation of a generalized laboratory data model.
	BMC Bioinformatics. 2007 Sep 26;8(1):362 [Epub ahead of print]
	top


56.	Jeck WR, Reinhardt JA, Baltrus DA, Hickenbotham MT, Magrini V, Mardis ER, Dangl JL, ...	PubMed
	Extending assembly of short DNA sequences to handle error.
	Bioinformatics. 2007 Sep 24; [Epub ahead of print]
	top


57.	Ghedin E, Wang S, Spiro D, Caler E, Zhao Q, Crabtree J, Allen JE, ...	PubMed
	Draft genome of the filarial nematode parasite Brugia malayi.
	Science. 2007 Sep 21;317(5845):1756-60.
	top


58.	Daniel C. Link, Ghada Kunter, Yumi Kasai, Yu Zhao, Tracie Miner, Michael D. McLellan, Rhonda E. Ries, ...	PubMed
	Distinct patterns of mutations occurring in de novo AML versus AML arising in the setting of severe congenital neutropenia.
	Blood. 2007 Sep 1;110(5):1648-55. Epub 2007 May 9.
	top


59.	Mitreva M, Zarlenga DS, McCarter JP, Jasmer DP.	PubMed
	Parasitic nematodes - from genomes to control.
	Vet Parasitol. 2007 Aug 19;148(1):31-42. Epub 2007 Jun 7.
	top


60.	Katzman S, Kern AD, Bejerano G, Fewell G, Fulton L, Wilson RK, Salama SR, ...	PubMed
	Human genome ultraconserved elements are ultraselected.
	Science. 2007 Aug 17;317(5840):915.
	top


61.	Hamvas A, Wegner DJ, Carlson CS, Bergmann KR, Trusgnich MA, Fulton L, Kasai Y, ...	PubMed
	Comprehensive genetic variant discovery in the surfactant protein B gene.
	Pediatr Res. 2007 Aug;62(2):170-5.
	top


62.	Mardis ER.	PubMed
	ChIP-seq: welcome to the new frontier.
	Nat Methods. 2007 Aug;4(8):613-4.
	top


63.	Hillier LW, Miller RD, Baird SE, Chinwalla A, Fulton LA, Koboldt DC, Waterston RH.	PubMed
	Comparison of C. elegans and C. briggsae Genome Sequences Reveals Extensive Conservation of Chromosome Organization and Synteny.
	PLoS Biol. 2007 Jul 3;5(7):e167 [Epub ahead of print]
	top


64.	Samuel BS, Hansen EE, Manchester JK, Coutinho PM, Henrissat B, Fulton R, Latreille P, ...	PubMed
	Genomic and metabolic adaptations of Methanobrevibacter smithii to the human gut.
	Proc Natl Acad Sci U S A. 2007 Jun 19;104(25):10643-8. Epub 2007 Jun 11.
	top


65.	Margulies EH, Cooper GM, Asimenos G, Thomas DJ, Dewey CN, Siepel A, Birney E, ...	PubMed
	Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.
	Genome Res. 2007 Jun;17(6):760-74.
	top


66.	ENCODE Project Consortium.	PubMed
	Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.
	Nature. 2007 Jun 14;447(7146):799-816.
	top


67.	Elizur A, Orscheln RC, Ferkol TW, Atkinson JJ, Dunne WM, Buller RS, Armstrong JR, ...	PubMed
	Panton-Valentine Leukocidin-Positive Methicillin-Resistant Staphylococcus aureus Lung Infection in Patients With Cystic Fibrosis.
	Chest. 2007 Jun;131(6):1718-25. Epub 2007 Mar 30.Click here to read
	top


68.	Jenifer L. Marks, Michael D. McLellan, Maureen F. Zakowski, Alex Lash, Yumi Kasai, Stephen Broderick, Inderpal S. Sarkaria, ...	PubMed
	Mutational Analysis of EGFR and Related Signaling Pathway Genes in Lung Adenocarcinomas Identifies a Novel Somatic Kinase Domain Mutation in FGFR4
	PLoS ONE. 2007 May 9;2:e426.
	top


69.	Link DC, Kunter G, Kasai Y, Zhao Y, Miner T, McLellan MD, Ries RE, ...	PubMed
	Distinct patterns of mutations occurring in de novo AML versus AML arising in the setting of severe congenital neutropenia.
	Blood. 2007 May 9; [Epub ahead of print]
	top


70.	Kistler AL, Webster DR, Rouskin S, Magrini V, Credle JJ, Schnurr DP, Boushey HA, ...	PubMed
	Genome-wide diversity and selective pressure in the human rhinovirus.
	Virol J. 2007 May 3;4:40.
	top


71.	Rhesus Macaque Genome Sequencing and Analysis Consortium, Gibbs RA, Rogers J, Katze MG, Bumgarner R, Weinstock GM, Mardis ER, ...	PubMed
	Evolutionary and biomedical insights from the rhesus macaque genome.
	Science. 2007 Apr 13;316(5822):222-34.
	top


72.	Chen K, McLellan MD, Ding L, Wendl MC, Kasai Y, Wilson RK, Mardis ER.	PubMed
	PolyScan: An automatic indel and SNP detection approach to the analysis of human resequencing data.
	Genome Res. 2007 Apr 6;
	top


73.	Roberto R, Capozzi O, Wilson RK, Mardis ER, Lomiento M, Tuzun E, Cheng Z, ...	PubMed
	Molecular refinement of gibbon genome rearrangements.
	Genome Res. 2007 Feb;17(2):249-57. Epub 2006 Dec 21.
	top


74.	Bieri T, Blasiar D, Ozersky P, Antoshechkin I, Bastiani C, Canaran P, Chan J, ...	PubMed
	WormBase: new content and better access.
	Nucleic Acids Res. 2007 Jan;35(Database issue):D506-10. Epub 2006 Nov 11.
	top


75.	Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER, Gordon JI.	PubMed
	An obesity-associated gut microbiome with increased capacity for energy harvest.
	Nature. 2006 Dec 21;444(7122):1027-131.
	top


76.	Wendl MC.	PubMed
	A general coverage theory for shotgun DNA sequencing.
	J Comput Biol. 2006 Jul-Aug;13(6):1177-96.
	top


77.	Mardis ER.	PubMed
	Anticipating the 1,000 dollar genome.
	Genome Biol. 2006;7(7):112.
	top


78.	Field JJ, Mason PJ, An P, Kasai Y, McLellan M, Jaeger S, Barnes YJ, ...	PubMed
	Low frequency of telomerase RNA mutations among children with aplastic anemia or myelodysplastic syndrome.
	J Pediatr Hematol Oncol. 2006 Jul;28(7):450-3.
	top


79.	Oh JD, Kling-Backhed H, Giannakis M, Xu J, Fulton RS, Fulton LA, Cordum HS, ...	PubMed
	The complete genome sequence of a chronic atrophic gastritis Helicobacter pylori strain: evolution during disease progression.
	Proc Natl Acad Sci U S A. 2006 Jun 27;103(26):9999-10004. Epub 2006 Jun 20.Click here to read
	top


80.	Warren RL, Varabei D, Platt D, Huang X, Messina D, Yang SP, Kronstad JW, ...	PubMed
	Physical map-assisted whole-genome shotgun sequence assemblies.
	Genome Res. 2006 Jun;16(6):768-75.
	top


81.	Wendl MC.	PubMed
	Occupancy Modeling of Coverage Distribution for Whole Genome Shotgun DNA Sequencing
	Bulletin of Mathematical Biology, 68 (1), 179-196.
	top


82.	Giannakis M, Stappenbeck TS, Mills JC, Leip DG, Lovett M, Clifton SW, Ippolito JE, ...	PubMed
	Molecular properties of adult mouse gastric and intestinal epithelial progenitors in their niches.
	J Biol Chem. 2006 Apr 21;281(16):11292-300. Epub 2006 Feb 7.
	top


83.	Chen SL, Hung CS, Xu J, Reigstad CS, Magrini V, Sabo A, Blasiar D, ...	PubMed
	Identification of genes subject to positive selection in uropathogenic strains of Escherichia coli: a comparative genomics approach.
	Proc Natl Acad Sci U S A. 2006 Apr 11;103(15):5977-82. Epub 2006 Apr 3.
	top


84.	Pham D, Kris MG, Riely GJ, Sarkaria IS, McDonough T, Chuai S, Venkatraman ES, ...	PubMed
	Use of cigarette-smoking history to estimate the likelihood of mutations in epidermal growth factor receptor gene exons 19 and 21 in lung adenocarcinomas.
	J Clin Oncol. 2006 Apr 10;24(11):1700-4. Epub 2006 Feb 27.
	top


85.	Yin Y, Martin J, McCarter JP, Clifton SW, Wilson RK, Mitreva M.	PubMed
	Identification and analysis of genes expressed in the adult filarial parasitic nematode Dirofilaria immitis.
	Int J Parasitol. 2006 Jun;36(7):829-39. Epub 2006 Mar 31.
	top


86.	Pham D, Kris MG, Riely GJ, Sarkaria IS, McDonough T, Chuai S, Venkatraman ES, ...	PubMed
	Use of cigarette-smoking history to estimate the likelihood of mutations in epidermal growth factor receptor gene exons 19 and 21 in lung adenocarcinomas.
	J Clin Oncol. 2006 Apr 10;24(11):1700-4. Epub 2006 Feb 27.
	top


87.	Cliften PF, Fulton RS, Wilson RK, Johnston M.	PubMed
	After the duplication: gene loss and adaptation in Saccharomyces genomes.
	Genetics. 2006 Feb;172(2):863-72. Epub 2005 Dec 1.
	top


88.	Huang X, Yang SP, Chinwalla AT, Hillier LW, Minx P, Mardis ER, Wilson RK.	PubMed
	Application of a superword array in genome assembly.
	Nucleic Acids Res. 2006 Jan 5;34(1):201-5. Print 2006.
	top


89.	Schwarz EM, Antoshechkin I, Bastiani C, Bieri T, Blasiar D, Canaran P, Chan J, ...	PubMed
	WormBase: better software, richer content.
	Nucleic Acids Res. 2006 Jan 1;34(Database issue):D475-8.Click here to read
	top


90.	Flowers SK, Easter C, Holmes A, Cohen B, Bednarski AE, Mardis ER, Wilson RK, ...	PubMed
	Genome science: a video tour of the Washington University Genome Sequencing Center for high school and undergraduate students.
	Cell Biol Educ. 2005 Winter;4(4):291-7.
	top


91.	Wendl MC, Barbazuk WB.	PubMed
	Extension of Lander-Waterman theory for sequencing filtered DNA libraries.
	BMC Bioinformatics. 2005 Oct 10;6:245.
	top


92.	Cheng Z, Ventura M, She X, Khaitovich P, Graves T, Osoegawa K, Church D, ...	PubMed
	A genome-wide comparison of recent chimpanzee and human segmental duplications.
	Nature. 2005 Sep 1;437(7055):88-93.
	top


93.	Wendl MC.	PubMed
	Bioweapons could kill more in one strike than guns.
	Nature. 2005 Sep 8;437(7056):192.
	top


94.	The Chimpanzee Sequencing and Analysis Consortium	PubMed
	Initial sequence of the chimpanzee genome and comparison with the human genome
	Nature. 2005 Sep 1;437(7055):69-87.
	top


95.	Hughes JF, Skaletsky H, Pyntikova T, Minx PJ, Graves T, Rozen S, Wilson RK, ...	PubMed
	Conservation of Y-linked genes during human evolution revealed by comparative sequencing in chimpanzee.
	Nature. 2005 Sep 1;437(7055):100-3.
	top


96.	Li BW, Rush AC, Crosby SD, Warren WC, Williams SA, Mitreva M, Weil GJ.	PubMed
	Profiling of gender-regulated gene transcripts in the filarial nematode Brugia malayi by cDNA oligonucleotide array analysis.
	Mol Biochem Parasitol. 2005 Sep;143(1):49-57.
	top


97.	Walter MJ, Park JS, Ries RE, Lau SK, McLellan M, Jaeger S, Wilson RK, ...	PubMed
	Reduced PU.1 expression causes myeloid progenitor expansion and increased leukemia penetrance in mice expressing PML-RARalpha.
	Proc Natl Acad Sci U S A. 2005 Aug 30;102(35):12513-8. Epub 2005 Aug 19.
	top


98.	Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K, Clawson H, ...	PubMed
	Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes.
	Genome Res. 2005 Jul 15;
	top


99.	Horvath JE, Gulden CL, Vallente RU, Eichler MY, Ventura M, McPherson JD, Graves TA, ...	PubMed
	Punctuated duplication seeding events during the evolution of human chromosome 2p11.
	Genome Res. 2005 Jul;15(7):914-27. Epub 2005 Jun 17.
	top


100.	Wendl MC.	PubMed
	The question of forbidden knowledge.
	Science. 2005 Jun 10;308(5728):1549-50.
	top


101.	Wendl MC.	PubMed
	Probabilistic assessment of clone overlapsin DNA fingerprint mapping via a priori models.
	J Comput Biol. 2005 Apr;12(3):283-97.
	top


102.	Mitreva M, McCarter JP, Arasu P, Hawdon J, Martin J, Dante M, Wylie T, ...	PubMed
	Investigating hookworm genomes by comparative analysis of two Ancylostoma species.
	BMC Genomics. 2005 Apr 26;6(1):58.
	top


103.	Katari MS, Balija V, Wilson RK, Martienssen RA, McCombie WR.	PubMed
	Comparing low coverage random shotgun sequence data from Brassica oleracea and Oryza sativa genome sequence for their ability to add to the annotation of Arabidopsis thaliana.
	Genome Res. 2005 Apr;15(4):496-504.
	top


104.	Hillier LW, Graves TA, Fulton RS, Fulton LA, Pepin KH, Minx P, Wagner-McPherson C, ...	PubMed
	Generation and annotation of the DNA sequences of human chromosomes 2 and 4.
	Nature. 2005 Apr 7;434(7034):724-31.
	top


105.	Ross MT, Grafham DV, Coffey AJ, Scherer S, McLay K, Muzny D, Platzer M, ...	PubMed
	The DNA sequence of the human X chromosome.
	Nature. 2005 Mar 17;434(7031):325-37.
	top


106.	Chen N, Harris TW, Antoshechkin I, Bastiani C, Bieri T, Blasiar D, Bradnam K, ...	PubMed
	WormBase: a comprehensive data resource for Caenorhabditis biology and genomics.
	Nucleic Acids Res. 2005 Jan 1;33 Database Issue:D383-9.
	top


107.	Ding L, Sabo A, Berkowicz N, Meyer RR, Shotland Y, Johnson MR, Pepin KH, ...	PubMed
	EAnnot: a genome annotation tool using experimental evidence.
	Genome Res. 2004 Dec;14(12):2503-9.
	top


108.	International Chicken Genome Sequencing Consortium	PubMed
	Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
	Nature. 2004 Dec 9;432(7018):695-716.
	top


109.	Wallis JW, Aerts J, Groenen MA, Crooijmans RP, Layman D, Graves TA, Scheer DE, ...	PubMed
	A physical map of the chicken genome.
	Nature. 2004 Dec 9;432(7018):679-80.
	top


110.	Wong GK, Liu B, Wang J, Zhang Y, Yang X, Zhang Z, Meng Q, ...	PubMed
	A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms.
	Nature. 2004 Dec 9;432(7018):717-22.
	top


111.	Parkinson J, Mitreva M, Whitton C, Thomson M, Daub J, Martin J, Schmid R, ...	PubMed
	A transcriptomic analysis of the phylum Nematoda
	Nat Genet. 2004 Dec;36(12):1259-67. Epub 2004 Dec.
	top


112.	C. Fauron, J. Allen, S. Clifton, K. Newton	Link
	2004 Plant mitochondrial genomes, pp. 155-171 in Molecular Biology and Biotechnology of Plant Organelles, edited by H. Daniell and C. Chase. Kluwer Academic Publishing.

	top


113.	McClelland M, Sanderson KE, Clifton SW, Latreille P, Porwollik S, Sabo A, Meyer R, ...	PubMed
	Comparison of genome degradation in Paratyphi A and Typhi, human-restricted serovars of Salmonella enterica that cause typhoid
	Nat Genet. 2004 Dec;36(12):1268-74. Epub 2004 Dec.
	top


114.	Sandra W. Clifton, Patrick Minx, Christiane M.-R. Fauron, Michael Gibson, James O. Allen, Hui Sun, Melissa Thompson, ...	PubMed
	Sequence and Comparative Analysis of the Maize NB Mitochondrial Genome
	Plant Physiol. 2004 Nov;136(3):3486-503.
	top


115.	A list of authors and their affiliations appears in the Supplementary Information	PubMed
	Gene discovery in the adenophorean nematode Trichinella spiralis: an analysis of transcription from three life cycle stages.
	Mol Biochem Parasitol. 2004 Oct;137(2):277-91.
	top


116.	Jasmer DP, Mitreva MD, McCarter JP.	PubMed
	mRNA sequences for Haemonchus contortus intestinal cathepsin B-like cysteine proteases display an extreme in abundance and diversity compared with other adult mammalian parasitic nematodes.
	Mol Biochem Parasitol. 2004 Oct;137(2):297-305.
	top


117.	A list of authors and their affiliations appears in the Supplementary Information	PubMed
	Finishing the euchromatic sequence of the human genome
	Nature. 2004 Oct 21;431(7011):931-45.
	top


118.	McCarter, J. P.	PubMed
	Genomic Filtering, an Approach to Discovering Novel Trends in Antiparasitics
	Trends Parasitol. 2004 Oct;20(10):462-8.
	top


119.	Pao W, Miller V, Zakowski M, Doherty J, Politi K, Sarkaria I, Singh B, ...	PubMed
	EGF receptor gene mutations are common in lung cancers from "never smokers" and are associated with sensitivity of tumors to gefitinib and erlotinib.
	Proc Natl Acad Sci U S A. 2004 Sep 7;101(36):13306-11.
	top


120.	Mitreva M, Elling AA, Dante M, Kloek AP, Kalyanaraman A, Aluru S, Clifton SW, ...	PubMed
	A survey of SL1-spliced transcripts from the root-lesion nematode Pratylenchus penetrans.
	Mol Genet Genomics. 2004 Sep;272(2):138-48. Epub 2004 Aug 28.
	top


121.	She X, Horvath JE, Jiang Z, Liu G, Furey TS, Christ L, Clark R, ...	PubMed
	The structure and evolution of centromeric transition regions within the human genome.
	Nature. 2004 Aug 19;430(7002):857-64.
	top


122.	Magrini V, Warren WC, Wallis J, Goldman WE, Xu J, Mardis ER, McPherson JD.	PubMed
	Fosmid-based physical mapping of the Histoplasma capsulatum genome.
	Genome Res. 2004 Aug;14(8):1603-9.
	top


123.	Woloszynek JR, Rothbaum RJ, Rawls AS, Minx PJ, Wilson RK, Mason PJ, Bessler M, ...	PubMed
	Mutations of the SBDS gene are present in most patients with Shwachman-Diamond syndrome.
	Blood. 2004 Jul 29 [Epub ahead of print]
	top


124.	Wicker T, Robertson JS, Schulze SR, Feltus FA, Magrini V, Morrison JA, Mardis ER, ...	PubMed
	The Repetitive Landscape of the Chicken Genome.
	Genome Res. 2004 Jul 15 [Epub ahead of print]
	top


125.	Mardis ER.	PubMed
	Advances in genome biology and technology.
	Pharmacogenomics. 2004 Jun;5(4):355-6.
	top


126.	Krzywinski M, Wallis J, Gosele C, Bosdet I, Chiu R, Graves T, Hummel O, ...	PubMed
	Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome.
	Genome Res. 2004 Apr;14(4):766-79.
	top


127.	Wendl MC, Yang SP.	PubMed
	Gap statistics for whole genome shotgun DNA sequencing projects.
	Bioinformatics. 2004 Feb 12 [Epub ahead of print]
	top


128.	Cras-Meneur C, Inoue H, Zhou Y, Ohsugi M, Bernal-Mizrachi E, Pape D, Clifton SW, ...	PubMed
	An expression profile of human pancreatic islet mRNAs by Serial Analysis of Gene Expression (SAGE).
	Diabetologia. 2004 Feb;47(2):284-99. Epub 2004 Jan 13.
	top


129.	Mitreva M, McCarter JP, Martin J, Dante M, Wylie T, Chiapelli B, Pape D, ...	PubMed
	Comparative genomics of gene expression in the parasitic and free-living nematodes Strongyloides stercoralis and Caenorhabditis elegans.
	Genome Res. 2004 Feb;14(2):209-20.
	top


130.	Cliften P.	PubMed
	The post-genomic era for a select few.
	Genome Biol. 2004;5(2):308. Epub 2004 Jan 15.
	top


131.	McCarter, J., P. Abad, J. T. Jones, and D. Bird.	Link
	Rapid Gene Discovery in Plant Parasitic Nematodes Via Expressed Sequence Tags
	Nematology, 2(7):719-731.
	top


132.	Harris TW, Chen N, Cunningham F, Tello-Ruiz M, Antoshechkin I, Bastiani C, Bieri T, ...	PubMed
	WormBase: a multi-species resource for nematode biology and genomics.
	Nucleic Acids Res. 2004 Jan 1;32 Database issue:D411-7.
	top


133.	Wylie T, Martin JC, Dante M, Mitreva MD, Clifton SW, Chinwalla A, Waterston RH, ...	PubMed
	Nematode.net: a tool for navigating sequences from parasitic and free-living nematodes.
	Nucleic Acids Res. 2004 Jan 1;32 Database issue:D423-6.
	top


134.	Gibson-Brown JJ, Osoegawa K, McPherson JD, Waterston RH, De Jong PJ, Rokhsar DS, Holland LZ.	PubMed
	A proposal to sequence the amphioxus genome submitted to the Joint Genome Institute of the US Department of Energy.
	J Exp Zoolog Part B Mol Dev Evol. 2003 Dec 15;300(1):5-22.
	top


135.	Clark MS, Edwards YJ, Peterson D, Clifton SW, Thompson AJ, Sasaki M, Suzuki Y, ...	PubMed
	Fugu ESTs: new resources for transcription analysis and genome annotation.
	Genome Res. 2003 Dec;13(12):2747-53. Epub 2003 Nov 12.
	top


136.	Ley TJ, Minx PJ, Walter MJ, Ries RE, Sun H, McLellan M, DiPersio JF, ...	PubMed
	A pilot study of high-throughput, sequence-based mutational profiling of primary human acute myeloid leukemia cell genomes.
	Proc Natl Acad Sci U S A. 2003 Nov 25;100(24):14275-80. Epub 2003 Nov 12.
	top


137.	Stein LD, Bao Z, Blasiar D, Blumenthal T, Brent MR, Chen N, Chinwalla A, ...	PubMed
	The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics.
	PLoS Biol. 2003 Nov;1(2):E45. Epub 2003 Nov 17.
	top


138.	Wang D, Urisman A, Liu YT, Springer M, Ksiazek TG, Erdman DD, Mardis ER, ...	PubMed
	Viral discovery and sequence recovery using DNA microarrays.
	PLoS Biol. 2003 Nov;1(2):E2. Epub 2003 Nov 17.
	top


139.	Michael C. Wendl	Link
	Collision probability between sets of random variables.
	Statistics & Probability Letters, Volume 64, Issue 3, 15 September 2003, Pages 249-254.
	top


140.	Huang X, Wang J, Aluru S, Yang SP, Hillier L.	PubMed
	PCAP: a whole-genome assembly program.
	Genome Res. 2003 Sep;13(9):2164-70.
	top


141.	Hillier LW, Fulton RS, Fulton LA, Graves TA, Pepin KH, Wagner-McPherson C, Layman D, ...	PubMed
	The DNA sequence of human chromosome 7.
	Nature. 2003 Jul 10;424(6945):157-64.
	top


142.	Wendl MC, Dooling DJ.	PubMed
	Open-source answer to bibliography problem.
	Nature. 2003 Aug 28;424(6952):995.
	top


143.	Kaestner KH, Lee CS, Scearce LM, Brestelli JE, Arsenlis A, Le PP, Lantz KA, ...	PubMed
	Transcriptional program of the endocrine pancreas in mice and humans.
	Diabetes. 2003 Jul;52(7):1604-10.
	top


144.	Lopez R, Silventoinen V, Robinson S, Kibria A, Gish W.	PubMed
	WU-Blast2 server at the European Bioinformatics Institute.
	Nucleic Acids Res. 2003 Jul 1;31(13):3795-8.
	top


145.	Skaletsky H, Kuroda-Kawaguchi T, Minx PJ, Cordum HS, Hillier L, Brown LG, Repping S, ...	PubMed
	The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes.
	Nature. 2003 Jun 19;423(6942):825-37.
	top


146.	Cliften P, Sudarsanam P, Desikan A, Fulton L, Fulton B, Majors J, Waterston R, ...	PubMed
	Finding functional features in Saccharomyces genomes by phylogenetic footprinting.
	Science. 2003 Jul 4;301(5629):71-6. Epub 2003 May 29.
	top


147.	Parkinson J, Mitreva M, Hall N, Blaxter M, McCarter JP.	PubMed
	400000 nematode ESTs on the Net.
	Trends Parasitol. 2003 Jul;19(7):283-6.
	top


148.	Rozen S, Skaletsky H, Marszalek JD, Minx PJ, Cordum HS, Waterston RH, Wilson RK, ...	PubMed
	Abundant gene conversion between arms of palindromes in human and ape Y chromosomes.
	Nature. 2003 Jun 19;423(6942):873-6.
	top


149.	Fuhrmann DR, Krzywinski MI, Chiu R, Saeedi P, Schein JE, Bosdet IE, Chinwalla A, ...	PubMed
	Software for automated analysis of DNA fingerprinting gels.
	Genome Res. 2003 May;13(5):940-53.
	top


150.	McCarter JP, Mitreva MD, Martin J, Dante M, Wylie T, Rao U, Pape D, ...	PubMed
	Analysis and functional classification of transcripts from the nematode Meloidogyne incognita.
	Genome Biol. 2003;4(4):R26. Epub 2003 Mar 31.
	top


151.	Waterston RH, Lander ES, Sulston JE.	PubMed
	More on the sequencing of the human genome.
	Proc Natl Acad Sci U S A. 2003 Mar 18;100(6):3022-4; author reply 3025-6. Epub 2003 Mar 11.
	top


152.	Li L, Brunk BP, Kissinger JC, Pape D, Tang K, Cole RH, Martin J, ...	PubMed
	Gene discovery in the apicomplexa as revealed by EST sequencing and assembly of a comparative gene database.
	Genome Res. 2003 Mar;13(3):443-54.
	top


153.	Heilig R, Eckenberg R, Petit JL, Fonknechten N, Da Silva C, Cattolico L, Levy M, ...	PubMed
	The DNA sequence and analysis of human chromosome 14.
	Nature. 2003 Feb 6;421(6923):601-7. Epub 2003 Jan 01.
	top


154.	Scholl EH, Thorne JL, McCarter JP, Bird DM.	PubMed
	Horizontally transferred genes in plant-parasitic nematodes: a high-throughput genomic approach.
	Genome Biol. 2003;4(6):R39. Epub 2003 May 19.
	top


155.	Harris TW, Lee R, Schwarz E, Bradnam K, Lawson D, Chen W, Blasier D, ...	PubMed
	WormBase: a cross-species database for comparative genomics.
	Nucleic Acids Res. 2003 Jan 1;31(1):133-7.
	top


156.	Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, Agarwal P, Agarwala R, ...	PubMed
	Initial sequencing and comparative analysis of the mouse genome.
	Nature. 2002 Dec 5;420(6915):520-62.
	top


157.	Klein SL, Strausberg RL, Wagner L, Pontius J, Clifton SW, Richardson P.	PubMed
	Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative.
	Dev Dyn. 2002 Dec;225(4):384-91.
	top


158.	Kan Z, States D, Gish W.	PubMed
	Selecting for functional alternative splices in ESTs.
	Genome Res. 2002 Dec;12(12):1837-45.
	top


159.	Wendl MC, Waterston RH.	PubMed
	Generalized gap model for bacterial artificial chromosome clone fingerprint mapping and shotgun sequencing.
	Genome Res. 2002 Dec;12(12):1943-9.
	top


160.	Rouchka EC, Gish W, States DJ.	PubMed
	Comparison of whole genome assemblies of the human genome.
	Nucleic Acids Res. 2002 Nov 15;30(22):5004-14.
	top


161.	Gregory SG, Sekhon M, Schein J, Zhao S, Osoegawa K, Scott CE, Evans RS, ...	PubMed
	A physical map of the mouse genome.
	Nature. 2002 Aug 15;418(6899):743-50. Epub 2002 Aug 04.
	top


162.	Scearce LM, Brestelli JE, McWeeney SK, Lee CS, Mazzarelli J, Pinney DF, Pizarro A, ...	PubMed
	Functional genomics of the endocrine pancreas: the pancreas clone set and PancChip, new resources for diabetes research.
	Diabetes. 2002 Jul;51(7):1997-2004.
	top


163.	Mardis E, McPherson J, Martienssen R, Wilson RK, McCombie WR.	PubMed
	What is finished, and why does it matter.
	Genome Res. 2002 May;12(5):669-71.
	top


164.	Shoemaker R, Keim P, Vodkin L, Retzel E, Clifton SW, Waterston R, Smoller D, ...	PubMed
	A compilation of soybean ESTs: generation and analysis.
	Genome. 2002 Apr;45(2):329-38.
	top


165.	Rowen L, Young J, Birditt B, Kaur A, Madan A, Philipps DL, Qin S, ...	PubMed
	Analysis of the human neurexin genes: alternative splicing and the generation of protein diversity.
	Genomics. 2002 Apr;79(4):587-97.
	top


166.	Waterston RH, Lander ES, Sulston JE.	PubMed
	On the sequencing of the human genome.
	Proc Natl Acad Sci U S A. 2002 Mar 19;99(6):3712-6. Epub 2002 Mar 05.
	top


167.	Hukriede N, Fisher D, Epstein J, Joly L, Tellis P, Zhou Y, Barbazuk B, ...	PubMed
	The LN54 radiation hybrid map of zebrafish expressed sequences.
	Genome Res. 2001 Dec;11(12):2127-32.
	top


168.	Kuroda-Kawaguchi T, Skaletsky H, Brown LG, Minx PJ, Cordum HS, Waterston RH, Wilson RK, ...	PubMed
	The AZFc region of the Y chromosome features massive palindromes and uniform recurrent deletions in infertile men.
	Nat Genet. 2001 Nov;29(3):279-86.
	top


169.	McClelland M, Sanderson KE, Spieth J, Clifton SW, Latreille P, Courtney L, Porwollik S, ...	PubMed
	Complete genome sequence of Salmonella enterica serovar Typhimurium LT2.
	Nature. 2001 Oct 25;413(6858):852-6.
	top


170.	Clark MD, Hennig S, Herwig R, Clifton SW, Marra MA, Lehrach H, Johnson SL, ...	PubMed
	An oligonucleotide fingerprint normalized and expressed sequence tag characterized zebrafish cDNA library.
	Genome Res. 2001 Sep;11(9):1594-602.
	top


171.	Jones SJ, Riddle DL, Pouzyrev AT, Velculescu VE, Hillier L, Eddy SR, Stricklin SL, ...	PubMed
	Changes in gene expression associated with developmental arrest and longevity in Caenorhabditis elegans.
	Genome Res. 2001 Aug;11(8):1346-52.
	top


172.	Wendl MC, Korf I, Chinwalla AT, Hillier LW.	PubMed
	Automated processing of raw DNA sequence data.
	IEEE Eng Med Biol Mag. 2001 Jul-Aug;20(4):41-8.
	top


173.	Cliften PF, Hillier LW, Fulton L, Graves T, Miner T, Gish WR, Waterston RH, ...	PubMed
	Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis.
	Genome Res. 2001 Jul;11(7):1175-86.
	top


174.	Wicks SR, Yeh RT, Gish WR, Waterston RH, Plasterk RH.	PubMed
	Rapid gene mapping in Caenorhabditis elegans using a high density polymorphism map.
	Nat Genet. 2001 Jun;28(2):160-4.
	top


175.	Kan Z, Rouchka EC, Gish WR, States DJ.	PubMed
	Gene structure prediction and alternative splicing analysis using genomically aligned ESTs.
	Genome Res. 2001 May;11(5):889-900.
	top


176.	Akopyants NS, Clifton SW, Martin J, Pape D, Wylie T, Li L, Kissinger JC, ...	PubMed
	A survey of the Leishmania major Friedlin strain V1 genome by shotgun sequencing: a resource for DNA microarrays and expression profiling.
	Mol Biochem Parasitol. 2001 Apr 6;113(2):337-40.
	top


177.	McPherson JD, Marra M, Hillier L, Waterston RH, Chinwalla A, Wallis J, Sekhon M, ...	PubMed
	A physical map of the human genome.
	Nature. 2001 Feb 15;409(6822):934-41.
	top


178.	Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, ...	PubMed
	Initial sequencing and analysis of the human genome.
	Nature. 2001 Feb 15;409(6822):860-921.
	top


179.	Sachidanandam R, Weissman D, Schmidt SC, Kakol JM, Stein LD, Marth G, Sherry S, ...	PubMed
	A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms.
	Nature. 2001 Feb 15;409(6822):928-33.
	top


180.	Tilford CA, Kuroda-Kawaguchi T, Skaletsky H, Rozen S, Brown LG, Rosenberg M, McPherson JD, ...	PubMed
	A physical map of the human Y chromosome.
	Nature. 2001 Feb 15;409(6822):943-5.
	top


181.	Wendl MC, Marra MA, Hillier LW, Chinwalla AT, Wilson RK, Waterston RH.	PubMed
	Theories and applications for sequencing randomly selected clones.
	Genome Res. 2001 Feb;11(2):274-80.
	top


182.	Huang T, Kuersten S, Deshpande AM, Spieth J, MacMorris M, Blumenthal T.	PubMed
	Intercistronic region required for polycistronic pre-mRNA processing in Caenorhabditis elegans.
	Mol Cell Biol. 2001 Feb;21(4):1111-20.
	top


183.	Stein L, Sternberg P, Durbin R, Thierry-Mieg J, Spieth J.	PubMed
	WormBase: network access to the genome and biology of Caenorhabditis elegans.
	Nucleic Acids Res. 2001 Jan 1;29(1):82-6.
	top


184.	McClelland M, Florea L, Sanderson K, Clifton SW, Parkhill J, Churcher C, Dougan G, ...	PubMed
	Comparison of the Escherichia coli K-12 genome with sampled genomes of a Klebsiella pneumoniae and three salmonella enterica serovars, Typhimurium, Typhi and Paratyphi.
	Nucleic Acids Res. 2000 Dec 15;28(24):4974-86.
	top


185.	Tabata S, Kaneko T, Nakamura Y, Kotani H, Kato T, Asamizu E, Miyajima N, ...	PubMed
	Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana.
	Nature. 2000 Dec 14;408(6814):823-6.
	top


186.	Korf I, Gish W.	PubMed
	MPBLAST : improved BLAST performance with multiplexed queries.
	Bioinformatics. 2000 Nov;16(11):1052-3.
	top


187.	Bedell JA, Korf I, Gish W.	PubMed
	MaskerAid: a performance enhancement to RepeatMasker.
	Bioinformatics. 2000 Nov;16(11):1040-1.
	top


188.	Hoppe PE, Waterston RH.	PubMed
	A region of the myosin rod important for interaction with paramyosin in Caenorhabditis elegans striated muscle.
	Genetics. 2000 Oct;156(2):631-43.
	top


189.	Barbazuk WB, Korf I, Kadavi C, Heyen J, Tate S, Wun E, Bedell JA, ...	PubMed
	The syntenic relationship of the zebrafish and human genomes.
	Genome Res. 2000 Sep;10(9):1351-8.
	top


190.	Emmert-Buck MR, Strausberg RL, Krizman DB, Bonaldo MF, Bonner RF, Bostwick DG, Brown MR, ...	PubMed
	Molecular profiling of clinical tissues specimens: feasibility and applications.
	J Mol Diagn. 2000 May;2(2):60-6.
	top


191.	Stuebe ET, Steward JQ, Chinwalla A, Cook LL, Cook M, Fronick B, Miller K, ...	PubMed
	Modification of a commercially available DNA sequencer to increase sample throughput.
	IEEE Eng Med Biol Mag. 2000 Mar-Apr;19(2):101-6.
	top


192.	Hutter H, Vogel BE, Plenefisch JD, Norris CR, Proenca RB, Spieth J, Guo C, ...	PubMed
	Conservation and novelty in the evolution of cell adhesion and extracellular matrix genes.
	Science. 2000 Feb 11;287(5455):989-94.
	top


193.	Ellsworth RE, Jamison DC, Touchman JW, Chissoe SL, Braden Maduro VV, Bouffard GG, Dietrich NL, ...	PubMed
	Comparative genomic sequence analysis of the human and mouse cystic fibrosis transmembrane conductance regulator genes.
	Proc Natl Acad Sci U S A. 2000 Feb 1;97(3):1172-7.
	top


194.	Kan Z, Gish W, Rouchka E, Glasscock J, States D.	PubMed
	UTR reconstruction and analysis using genomically aligned EST sequences.
	Proc Int Conf Intell Syst Mol Biol. 2000;8:218-27.
	top


195.	Neuman RJ, Huettner PC, Li L, Mardis ER, Duffy BF, Wilson RK, Rader JS.	PubMed
	Association between DQB1 and cervical cancer in patients with human papillomavirus and family controls.
	Obstet Gynecol. 2000 Jan;95(1):134-40.
	top


196.	Marra MA, Kucaba TA, Hillier LW, Waterston RH.	PubMed
	High-throughput plasmid DNA purification for 3 cents per sample.
	Nucleic Acids Res. 1999 Dec 15;27(24):e37.
	top


197.	Marth GT, Korf I, Yandell MD, Yeh RT, Gu Z, Zakeri H, Stitziel NO, ...	PubMed
	A general approach to single-nucleotide polymorphism discovery.
	Nat Genet. 1999 Dec;23(4):452-6.
	top


198.	Hresko MC, Schriefer LA, Shrimankar P, Waterston RH.	PubMed
	Myotactin, a novel hypodermal protein involved in muscle-cell adhesion in Caenorhabditis elegans.
	J Cell Biol. 1999 Aug 9;146(3):659-72.
	top


199.	Hukriede NA, Joly L, Tsang M, Miles J, Tellis P, Epstein JA, Barbazuk WB, ...	PubMed
	Radiation hybrid mapping of the zebrafish genome.
	Proc Natl Acad Sci U S A. 1999 Aug 17;96(17):9745-50.
	top


200.	Streit A, Li W, Robertson B, Schein J, Kamal IH, Marra M, Wood WB.	PubMed
	Homologs of the Caenorhabditis elegans masculinizing gene her-1 in C. briggsae and the filarial parasite Brugia malayi.
	Genetics. 1999 Aug;152(4):1573-84.
	top


201.	Marra M, Kucaba T, Sekhon M, Hillier L, Martienssen R, Chinwalla A, Crockett J, ...	PubMed
	A map for sequence analysis of the Arabidopsis thaliana genome.
	Nat Genet. 1999 Jul;22(3):265-70.
	top


202.	Ellsworth RE, Ionasescu V, Searby C, Sheffield VC, Braden VV, Kucaba TA, McPherson JD, ...	PubMed
	The CMT2D locus: refined genetic position and construction of a bacterial clone-based physical map.
	Genome Res. 1999 Jun;9(6):568-74.
	top


203.	Mozo T, Dewar K, Dunn P, Ecker JR, Fischer S, Kloska S, Lehrach H, ...	PubMed
	A complete BAC-based physical map of the Arabidopsis thaliana genome.
	Nat Genet. 1999 Jul;22(3):271-5.
	top


204.	Parsons JD, Buehler E, Hillier L.	PubMed
	DNA sequence chromatogram browsing using JAVA and CORBA.
	Genome Res. 1999 Mar;9(3):277-81.
	top


205.	Wilson RK.	PubMed
	How the worm was won. The C. elegans genome sequencing project.
	Trends Genet. 1999 Feb;15(2):51-8.
	top


206.	Marra M, Hillier L, Kucaba T, Allen M, Barstead R, Beck C, Blistain A, ...	PubMed
	An encyclopedia of mouse genes.
	Nat Genet. 1999 Feb;21(2):191-4.
	top


207.	Vissinga CS, Yeo TC, Woessner J, Massa HF, Wilson RK, Trask BJ, Concannon P.	PubMed
	Identification, characterization, and mapping of a mouse homolog of the gene mutated in Nijmegen breakage syndrome.
	Cytogenet Cell Genet. 1999;87(1-2):80-4.
	top


208.	[No authors listed.]	PubMed
	Genome sequence of the nematode C. elegans: a platform for investigating biology. The C. elegans Sequencing Consortium.
	Science. 1998 Dec 11;282(5396):2012-8. Review. Erratum in: Science 1999 Jan 1;283(5398):35. Science 1999 Mar 26;283(5410):2103. Science 1999 Sep 3;285(5433):1493.
	top


209.	Waterston R, Sulston JE.	PubMed
	The Human Genome Project: reaching the finish line.
	Science. 1998 Oct 2;282(5386):53-4.
	top


210.	Mazzarella R, Schlessinger D.	PubMed
	Pathological consequences of sequence duplications in the human genome.
	Genome Res. 1998 Oct;8(10):1007-21.
	top


211.	Wendl MC, Dear S, Hodgson D, Hillier L.	PubMed
	Automated sequence preprocessing in a large-scale sequencing environment.
	Genome Res. 1998 Sep;8(9):975-84.
	top


212.	McClelland M, Wilson RK.	PubMed
	Comparison of sample sequences of the Salmonella typhi genome to the sequence of the complete Escherichia coli K-12 genome.
	Infect Immun. 1998 Sep;66(9):4305-12
	top


213.	Taillon-Miller P, Gu Z, Li Q, Hillier L, Kwok PY.	PubMed
	Overlapping genomic sequences: a treasure trove of single-nucleotide polymorphisms.
	Genome Res. 1998 Jul;8(7):748-54.
	top


214.	Panussis DA, Cook MW, Rifkin LL, Snider JE, Strong JT, McGrane RM, Wilson RK, ...	PubMed
	A pneumatic device for rapid loading of DNA sequencing gels.
	Genome Res. 1998 May;8(5):543-8.
	top


215.	Manger ID, Hehl A, Parmley S, Sibley LD, Marra M, Hillier L, Waterston R, ...	PubMed
	Expressed sequence tag analysis of the bradyzoite stage of Toxoplasma gondii: identification of developmentally regulated genes.
	Infect Immun. 1998 Apr;66(4):1632-7.
	top


216.	Dear S, Durbin R, Hillier L, Marth G, Thierry-Mieg J, Mott R.	PubMed
	Sequence assembly with CAFTOOLS.
	Genome Res. 1998 Mar;8(3):260-7.
	top


217.	Ewing B, Hillier L, Wendl MC, Green P.	PubMed
	Base-calling of automated sequencer traces using phred. I. Accuracy assessment.
	Genome Res. 1998 Mar;8(3):175-85.
	top


218.	Gu Z, Hillier L, Kwok PY.	PubMed
	Single nucleotide polymorphism hunting in cyberspace.
	Hum Mutat. 1998;12(4):221-5.
	top


219.	Ajioka JW, Boothroyd JC, Brunk BP, Hehl A, Hillier L, Manger ID, Marra M, ...	PubMed
	Gene discovery by EST sequencing in Toxoplasma gondii reveals sequences restricted to the Apicomplexa.
	Genome Res. 1998 Jan;8(1):18-28.
	top


220.	McPherson JD, Dixon MJ.	PubMed
	Report of the Fourth International Workshop on Human Chromosome 5 mapping 1996.
	Cytogenet Cell Genet. 1998;81(3-4):170-73.
	top


221.	Marra MA, Hillier L, Waterston RH.	PubMed
	Expressed sequence tags--ESTablishing bridges between genomes.
	Trends Genet. 1998 Jan;14(1):4-7. Review. No abstract available.
	top


222.	Taillon-Miller P, Bauer-Sardina I, Zakeri H, Hillier L, Mutch DG, Kwok PY.	PubMed
	The homozygous complete hydatidiform mole: a unique resource for genome studies.
	Genomics. 1997 Dec 1;46(2):307-10.
	top


223.	McPherson JD.	PubMed
	Sequence ready-or not?
	Genome Res. 1997 Dec;7(12):1111-3.
	top


224.	Marra MA, Kucaba TA, Dietrich NL, Green ED, Brownstein B, Wilson RK, McDonald KM, ...	PubMed
	High throughput fingerprint analysis of large-insert clones.
	Genome Res. 1997 Nov;7(11):1072-84.
	top


225.	Sandford R, Sgotto B, Aparicio S, Brenner S, Vaudin M, Wilson RK, Chissoe S, ...	PubMed
	Comparative analysis of the polycystic kidney disease 1 (PKD1) gene reveals an integral membrane glycoprotein with multiple evolutionary conserved domains.
	Hum Mol Genet. 1997 Sep;6(9):1483-9.
	top


226.	Chissoe SL, Marra MA, Hillier L, Brinkman R, Wilson RK, Waterston RH.	PubMed
	Representation of cloned genomic sequences in two sequencing vectors: correlation of DNA sequence and subclone distribution.
	Nucleic Acids Res. 1997 Aug 1;25(15):2960-6.
	top


227.	Johnston M, Hillier L, Riles L, Albermann K, Andre B, Ansorge W, Benes V, ...	PubMed
	The nucleotide sequence of Saccharomyces cerevisiae chromosome XII.
	Nature. 1997 May 29;387(6632 Suppl):87-90.
	top


228.	Devine SE, Chissoe SL, Eby Y, Wilson RK, Boeke JD.	PubMed
	A transposon-based strategy for sequencing repetitive DNA in eukaryotic genomes.
	Genome Res. 1997 May;7(5):551-63.
	top


229.	Blumenthal T, Spieth J.	PubMed
	Gene structure and organization in Caenorhabditis elegans.
	Curr Opin Genet Dev. 1996 Dec;6(6):692-8.
	top


230.	Marra M, Weinstock LA, Mardis ER.	PubMed
	End sequence determination from large insert clones using energy transfer fluorescent primers.
	Genome Res. 1996 Nov;6(11):1118-22.
	top


231.	Cooper ML, Maffitt DR, Parsons JD, Hillier L, States DJ.	PubMed
	Lane tracking software for four-color fluorescence-based electrophoretic gel images.
	Genome Res. 1996 Nov;6(11):1110-7.
	top


232.	Hoppe PE, Waterston RH.	PubMed
	Hydrophobicity variations along the surface of the coiled-coil rod may mediate striated muscle myosin assembly in Caenorhabditis elegans.
	J Cell Biol. 1996 Oct;135(2):371-82.
	top


233.	Hillier LD, Lennon G, Becker M, Bonaldo MF, Chiapelli B, Chissoe S, Dietrich N, ...	PubMed
	Generation and analysis of 280,000 human expressed sequence tags.
	Genome Res. 1996 Sep;6(9):807-28.
	top


234.	Moulder GL, Huang MM, Waterston RH, Barstead RJ.	PubMed
	Talin requires beta-integrin, but not vinculin, for its assembly into focal adhesion-like structures in the nematode Caenorhabditis elegans.
	Mol Biol Cell. 1996 Aug;7(8):1181-93.
	top


235.	Liu J, Schrank B, Waterston RH.	PubMed
	Interaction between a putative mechanosensory membrane channel and a collagen.
	Science. 1996 Jul 19;273(5273):361-4.
	top


236.	Waddle JA, Karpova TS, Waterston RH, Cooper JA.	PubMed
	Movement of cortical actin patches in yeast.
	J Cell Biol. 1996 Mar;132(5):861-70.
	top


237.	Altschul SF, Gish W.	PubMed
	Local alignment statistics.
	Methods Enzymol. 1996;266:460-80.
	top


238.	Du Z, Wilson RK.	PubMed
	Using the automated DNA sequencer.
	Methods Mol Biol. 1996;58:425-39.
	top


239.	Parsons JD.	PubMed
	Miropeats: graphical DNA sequence comparisons.
	Comput Appl Biosci. 1995 Dec;11(6):615-9.
	top


240.	Parsons JD.	PubMed
	Improved tools for DNA comparison and clustering.
	Comput Appl Biosci. 1995 Dec;11(6):603-13.
	top


241.	Waterston R, Sulston J.	PubMed
	The genome of Caenorhabditis elegans.
	Proc Natl Acad Sci U S A. 1995 Nov 21;92(24):10836-40.
	top


242.	Steffens DL, Jang GY, Sutter SL, Brumbaugh JA, Middendorf LR, Muhlegger K, Mardis ER, ...	PubMed
	An infrared fluorescent dATP for labeling DNA.
	Genome Res. 1995 Nov;5(4):393-9.
	top


243.	Chalfie M, Eddy S, Hengartner MO, Hodgkin J, Kohara Y, Plasterk RH, Waterston RH, ...	PubMed
	Genome maps. VI. Caenorhabditis elegans. Wall chart.
	Science. 1995 Oct 20;270(5235):415-30.
	top


244.	Hodgkin J, Plasterk RH, Waterston RH.	PubMed
	The nematode Caenorhabditis elegans and its genome.
	Science. 1995 Oct 20;270(5235):410-4.
	top


245.	Mardis ER, Panussis DA, Weinstock LA, Wilson RK.	PubMed
	Resistance heating device reduces gel mobility compressions in automated fluorescent sequencing.
	Biotechniques. 1995 Apr;18(4):622-4.
	top


246.	Vaudin M, Roopra A, Hillier L, Brinkman R, Sulston J, Wilson RK, Waterston RH.	PubMed
	The construction and analysis of M13 libraries prepared from YAC DNA.
	Nucleic Acids Res. 1995 Feb 25;23(4):670-4.
	top


247.	Fulton LL, Hillier LD, Wilson RK.	PubMed
	Large-scale complementary DNA sequencing methods.
	Methods Cell Biol. 1995;48:571-82. Review.
	top


248.	Favello A, Hillier L, Wilson RK.	PubMed
	Genomic DNA sequencing methods.
	Methods Cell Biol. 1995;48:551-69. Review.
	top


249.	Lye RJ, Wilson RK, Waterston RH.	PubMed
	Genomic structure of a cytoplasmic dynein heavy chain gene from the nematode Caenorhabditis elegans.
	Cell Motil Cytoskeleton. 1995;32(1):26-36.
	top


250.	Goetinck S, Waterston RH.	PubMed
	The Caenorhabditis elegans muscle-affecting gene unc-87 encodes a novel thin filament-associated protein.
	J Cell Biol. 1994 Oct;127(1):79-93.
	top


251.	Goetinck S, Waterston RH.	PubMed
	The Caenorhabditis elegans UNC-87 protein is essential for maintenance, but not assembly, of bodywall muscle.
	J Cell Biol. 1994 Oct;127(1):71-8.
	top


252.	Johnston M, Andrews S, Brinkman R, Cooper J, Ding H, Dover J, Du Z, ...	PubMed
	Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII.
	Science. 1994 Sep 30;265(5181):2077-82.
	top


253.	Smith J.	PubMed
	Variations on cycle sequencing.
	Biotechniques. 1994 Aug;17(2):298-301.
	top


254.	Waddle JA, Cooper JA, Waterston RH.	PubMed
	Transient localized accumulation of actin in Caenorhabditis elegans blastomeres with oriented asymmetric divisions.
	Development. 1994 Aug;120(8):2317-28.
	top


255.	Mardis ER.	PubMed
	High-throughput detergent extraction of M13 subclones for fluorescent DNA sequencing.
	Nucleic Acids Res. 1994 Jun 11;22(11):2173-5.
	top


256.	Wilson R, Ainscough R, Anderson K, Baynes C, Berks M, Bonfield J, Burton J, ...	PubMed
	2.2 Mb of contiguous nucleotide sequence from chromosome III of C. elegans.
	Nature. 1994 Mar 3;368(6466):32-8.
	top


257.	Hresko MC, Williams BD, Waterston RH.	PubMed
	Assembly of body wall muscle and muscle cell attachment structures in Caenorhabditis elegans.
	J Cell Biol. 1994 Feb;124(4):491-506.
	top


258.	Williams BD, Waterston RH.	PubMed
	Genes critical for muscle development and function in Caenorhabditis elegans identified through lethal mutations.
	J Cell Biol. 1994 Feb;124(4):475-90.
	top


259.	Wilson RK.	PubMed
	High-throughput purification of M13 templates for DNA sequencing.
	Biotechniques. 1993 Sep;15(3):414-6, 418-20, 422.
	top


260.	Waddle JA, Cooper JA, Waterston RH.	PubMed
	The alpha and beta subunits of nematode actin capping protein function in yeast.
	Mol Biol Cell. 1993 Sep;4(9):907-17.
	top


261.	Porta G, Zucchi I, Hillier L, Green P, Nowotny V, D'Urso M, Schlessinger D.	PubMed
	Alu and L1 sequence distributions in Xq24-q28 and their comparative utility in YAC contig assembly and verification.
	Genomics. 1993 May;16(2):417-25.
	top


262.	Green P, Lipman D, Hillier L, Waterston R, States D, Claverie JM.	PubMed
	Ancient conserved regions in new gene sequences and the protein databases.
	Science. 1993 Mar 19;259(5102):1711-6.
	top


263.	Waterston R, Ainscough R, Anderson K, Berks M, Blair D, Connell M, Cooper J, ...	PubMed
	The genome of the nematode Caenorhabditis elegans.
	Cold Spring Harb Symp Quant Biol. 1993;58:367-76.
	top


264.	Du Z, Hood L, Wilson RK.	PubMed
	Automated fluorescent DNA sequencing of polymerase chain reaction products.
	Methods Enzymol. 1993;218:104-21.
	top


265.	Halloran N, Du Z, Wilson RK.	PubMed
	Sequencing reactions for the applied biosystems 373A Automated DNA Sequencer.
	Methods Mol Biol. 1993;23:297-315.
	top


266.	Williams BD, Schrank B, Huynh C, Shownkeen R, Waterston RH.	PubMed
	A genetic mapping system in Caenorhabditis elegans based on polymorphic sequence-tagged sites.
	Genetics. 1992 Jul;131(3):609-24.
	top


267.	Waterston R, Martin C, Craxton M, Huynh C, Coulson A, Hillier L, Durbin R, ...	PubMed
	A survey of expressed genes in Caenorhabditis elegans.
	Nat Genet. 1992 May;1(2):114-23.
	top


268.	Sulston J, Du Z, Thomas K, Wilson R, Hillier L, Staden R, Halloran N, ...	PubMed
	The C. elegans genome sequencing project: a beginning.
	Nature. 1992 Mar 5;356(6364):37-41.
	top


269.	Gleeson T, Hillier L.	PubMed
	A trace display and editing program for data from fluorescence based sequencing machines.
	Nucleic Acids Res. 1991 Dec 11;19(23):6481-3.
	top


270.	Hillier L, Green P.	PubMed
	OSP: a computer program for choosing PCR and DNA sequencing primers.
	PCR Methods Appl. 1991 Nov;1(2):124-8.
	top


271.	Moerman DG, Kiff JE, Waterston RH.	PubMed
	Germline excision of the transposable element Tc1 in C. elegans.
	Nucleic Acids Res. 1991 Oct 25;19(20):5669-72.
	top


272.	Francis R, Waterston RH.	PubMed
	Muscle cell attachment in Caenorhabditis elegans.
	J Cell Biol. 1991 Aug;114(3):465-79.
	top


273.	Barstead RJ, Kleiman L, Waterston RH.	PubMed
	Cloning, sequencing, and mapping of an alpha-actinin gene from the nematode Caenorhabditis elegans.
	Cell Motil Cytoskeleton. 1991;20(1):69-78.
	top


274.	Schriefer LA, Gebauer BK, Qui LQ, Waterston RH, Wilson RK.	PubMed
	Low pressure DNA shearing: a method for random DNA sequence analysis.
	Nucleic Acids Res. 1990 Dec 25;18(24):7455-6.
	top


275.	Venolia L, Waterston RH.	PubMed
	The unc-45 gene of Caenorhabditis elegans is an essential muscle-affecting gene with maternal expression.
	Genetics. 1990 Oct;126(2):345-53.
	top


276.	Kondo K, Makovec B, Waterston RH, Hodgkin J.	PubMed
	Genetic and molecular analysis of eight tRNA(Trp) amber suppressors in Caenorhabditis elegans.
	J Mol Biol. 1990 Sep 5;215(1):7-19.
	top


277.	Mori I, Moerman DG, Waterston RH.	PubMed
	Interstrain crosses enhance excision of Tc1 transposable elements in Caenorhabditis elegans.
	Mol Gen Genet. 1990 Jan;220(2):251-5.
	top


278.	Waterston RH.	PubMed
	The minor myosin heavy chain, mhcA, of Caenorhabditis elegans is necessary for the initiation of thick filament assembly.
	EMBO J. 1989 Nov;8(11):3429-36.
	top


webmaster@genome.wustl.edu Last Update: 2009-11-07	top \| home