Items where Subject is "bioinformatics > genomics and proteomics > annotation > sequence annotation"

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Number of items at this level: 116.

A

Albert, F. W., Hodges, E., Jensen, J. D., Besnier, F., Xuan, Z. Y., Rooks, M., Bhattacharjee, A., Brizuela, L., Good, J. M., Green, R. E., Burbano, H. A., Plyusnina, I. Z., Trut, L., Andersson, L., Schoneberg, T., Carlborg, O., Hannon, G. J., Paabo, S. (2011) Targeted resequencing of a genomic region influencing tameness and aggression reveals multiple signals of positive selection. Heredity, 107 (3). pp. 205-214. ISSN 0018-067X

Amid, C., Frankish, A., Aken, B., Ezkurdia, I., Kokocinsk, F., Gilbert, J., White, S., Carninci, P., Gingeras, T. R., Guigo, R., Searle, S., Tress, M. L., Harrow, J., Hubbard, T. (2010) From identification to validation to gene count. Genome Biology, 11 (Suppl ). ISSN 1474-760X

Andersen, J. N., Del Vecchio, R. L., Kannan, N., Gergel, J., Neuwald, A. F., Tonks, N.K. (2005) Computational analysis of protein tyrosine phosphatases: practical guide to bioinformatics and data resources. Methods, 35 (1). pp. 90-114. ISSN 1046-2023 (Print)

Aravin, A. A., Gaidatzis, D., Pfeffer, S., Lagos-Quintana, M., Landgraf, P., Iovino, N., Morris, P., Brownstein, M. J., Kuramochi-Miyagawa, S., Nakano, T., Chien, M. C., Russo, J. J., Ju, J. Y., Sheridan, R., Sander, C., Zavolan, M. , Tuschl, T. (2006) A novel class of small RNAs bind to MILI protein in mouse testes. Nature, 442 (7099). pp. 203-7. ISSN 1476-4687 (Electronic)

Argout, X., Salse, J., Aury, J. M., Guiltinan, M. J., Droc, G., Gouzy, J., Allegre, M., Chaparro, C., Legavre, T., Maximova, S. N., Abrouk, M., Murat, F., Fouet, O., Poulain, J., Ruiz, M., Roguet, Y., Rodier-Goud, M., Barbosa-Neto, J. F., Sabot, F., Kudrna, D., Ammiraju, J. S. S., Schuster, S. C., Carlson, J. E., Sallet, E., Schiex, T., Dievart, A., Kramer, M. R., Gelley, L., Shi, Z., Bérard, A., Viot, C., Boccara, M., Risterucci, A. M., Guignon, V., Sabau, X., Axtell, M. J., Ma, Z., Zhang, Y, Brown, S., Bourge, M., Golser, W., Song, X., Clement, D., Rivallan, R., Tahi, M., Akaza, J. M., Pitollat, B., Gramacho, K., D'Hont, A., Brunel, D., Infante, D., Kebe, I., Costet, P., Wing, R., McCombie, W. R., Guiderdoni, E., Quetier, F., Panaud, O., Wincker, P., Bocs, S., Lanaud, C. (2011) The genome of Theobroma cacao. Nature Genetics, 43 (2). pp. 101-108. ISSN 10614036

Arnaiz, Olivier, Cain, Scott, Cohen, Jean, Sperling, Linda (2007) ParameciumDB: a community resource that integrates the Paramecium tetraurelia genome sequence with genetic data. Nucleic Acids Res, 35. D439-D444. ISSN 0305-1048

B

Barker, D., McCoy, M., Weinberg, R., Goldfarb, M., Wigler, M. H., Burt, R., Gardner, E., White, R. (1983) A test of the role of two oncogenes in inherited predisposition to colon cancer. Mol Biol Med, 1 (2). pp. 199-206. ISSN 0735-1313 (Print)

Berezikov, E., Robine, N., Samsonova, A., Westholm, J. O., Naqvi, A., Hung, J. H., Okamura, K., Dai, Q., Bortolamiol-Becet, D., Martin, R., Zhao, Y. J., Zamore, P. D., Hannon, G. J., Marra, M. A., Weng, Z. P., Perrimon, N., Lai, E. C. (2011) Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence. Genome Research, 21 (2). pp. 203-215. ISSN 1088-9051

Birol, I., Champ, M., Cant, J. (2010) GENOME INFORMATICS. In: Joint Cold Spring Harbor Laboratory/Wellcome Trust Conference on GENOME INFORMATICS, September 15–September 19, 2010, Wellcome Conference Center.

Blankenberg, D., Gordon, A., Von Kuster, G., Coraor, N., Taylor, J., Nekrutenko, A. (2010) Manipulation of FASTQ data with Galaxy. Bioinformatics, 26 (14). pp. 1783-1785. ISSN 1367-4803

Bogdanove, A. J., Koebnik, R., Lu, H., Furutani, A., Angiuoli, S. V., Patil, P. B., Van Sluys, M. A., Ryan, R. P., Meyer, D. F., Han, S. W., Aparna, G., Rajaram, M., Delcher, A. L., Phillippy, A. M., Puiu, D., Schatz, M. C., Shumway, M., Sommer, D. D., Trapnell, C., Benahmed, F., Dimitrov, G., Madupu, R., Radune, D., Sullivan, S., Jha, G., Ishihara, H., Lee, S. W., Pandey, A., Sharma, V., Sriariyanun, M., Szurek, B., Vera-Cruz, C. M., Dorman, K. S., Ronald, P. C., Verdier, V., Dow, J. M., Sonti, R. V., Tsuge, S., Brendel, V. P., Rabinowicz, P. D., Leach, J. E., White, F. F., Salzberg, S. L. (2011) Two new complete genome sequences offer insight into host and tissue specificity of plant pathogenic Xanthomonas spp. Journal of Bacteriology, 193 (19). pp. 5450-5464. ISSN 00219193 (ISSN)

Buell, C. R., McCombie, W. R., Wing, R. A., Yuan, Q., Ouyang, S., Liu, J., Zhu, W., Wang, A., Maiti, R., Haas, B., Wortman, J., Pertea, M., Jones, K. M., Kim, M., Overton, L., Tsitrin, T., Fadrosh, D., Bera, J., Weaver, J., Jin, S., Johri, S., Reardon, M., Webb, K., Hill, J., Moffat, K., Tallon, L., Van Aken, S., Lewis, M., Utterback, T., Feldblyum, T., Zismann, V., Iobst, S., Hsiao, J., De Vazeille, A. R., Salzberg, S. L., White, O., Fraser, C., Yu, Y., Kim, H., Rambo, T., Currie, J., Collura, K., Kernodle-Thompson, S., Wei, F., Kudrna, D., Ammiraju, J. S. S., Luo, M., Goicoechea, J. L., Henry, D., Oates, R., Palmer, M., Pries, G., Saski, C., Simmons, J., Soderlund, C., Nelson, W., De La Bastide, M., Spiegel, L., Nascimento, L., Huang, E., Preston, R., Zutavern, T., Palmer, L., O'Haughnessy, A., Dike, S., Minx, P., Cordum, H., Wilson, R., Jin, W., Lee, H. R., Jiang, J., Jackson, S. (2005) Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species. The Rice Chromosome 3 Sequencing Consortium. Genome Research, 15 (9). pp. 1284-1291. ISSN 10889051 (ISSN)

Buratti, E., Chivers, M., Královičová, J., Romano, M., Baralle, M., Krainer, Adrian R., Vořechovský, I. (2007) Aberrant 5' splice sites in human disease genes: mutation pattern, nucleotide structure and comparison of computational tools that predict their utilization. Nucleic Acids Res, 35 (13). pp. 4250-4263. ISSN 1362-4962 (Electronic)

Burbano, H. A., Hodges, E., Green, R. E., Briggs, A. W., Krause, J., Meyer, M., Good, J. M., Maricic, T., Johnson, P. L. F., Xuan, Z. Y., Rooks, M., Bhattacharjee, A., Brizuela, L., Albert, F. W., De La Rasilla, M., Fortea, J., Rosas, A., Lachmann, M., Hannon, G. J., Paabo, S. (2010) Targeted investigation of the neandertal genome by array-based sequence capture. Science, 328 (5979). pp. 723-725.

Burgess, R., Yang, Z. (2008) Estimation of hominoid ancestral population sizes under Bayesian coalescent models incorporating mutation rate variation and sequencing errors. Molecular Biology and Evolution, 25 (9). pp. 1979-1994. ISSN 0737-4038

C

Cabal, R., Khanin, R., Viali, A., Socci, N., Lucito, R., Olshen, A., Zhang, J., Gerald, W., Powers, S., Ladanyi, M. (2011) Testing and Validating High Throughput Genomic Analysis of FFPE Samples: Systematic Gene Expression Differences between Matched Frozen and FFPE Samples Due to Rapid mRNA Degradation Signals. Modern Pathology, 24. p. 1875. ISSN 0893-3952

Canaran, P., Stein, L. D., Ware, D. H. (2006) Look-Align: an interactive web-based multiple sequence alignment viewer with polymorphism analysis support. Bioinformatics, 22 (7). pp. 885-6. ISSN 1367-4803 (Print)

Chia, J. M., Ware, D. H. (2011) Sequencing for the cream of the crop. Nature Biotechnology, 29 (2). pp. 138-9. ISSN 1546-1696 (Electronic) 1087-0156 (Linking)

Church, D. M., Schneider, V. A., Steinberg, K. M., Schatz, M. C., Quinlan, A. R., Chin, C. S., Kitts, P. A., Aken, B., Marth, G. T., Hoffman, M. M., Herrero, J., Mendoza, M. L. Z., Durbin, R., Flicek, P. (2015) Extending reference assembly models. Genome Biology, 16. Article no. 13. ISSN 1465-6906

Cornman, R. S., Chen, Y. P., Schatz, M. C., Street, C., Zhao, Y., Desany, B., Egholm, M., Hutchison, S., Pettis, J. S., Lipkin, W. I., Evans, J. D. (2009) Genomic analyses of the microsporidian Nosema ceranae, an emergent pathogen of honey bees. PLoS Pathogens, 5 (6). ISSN 15537366 (ISSN)

Cornman, S. R., Schatz, M. C., Johnston, S. J., Chen, Y., Pettis, J., Hunt, G., Bourgeois, L., Elsik, C., Anderson, D., Grozinger, C. M., Evans, J. D. (2010) Genomic survey of the ectoparasitic mite Varroa destructor, a major pest of the honey bee Apis mellifera. BMC Genomics, 11 (1). ISSN 14712164 (ISSN)

Cranston, K. A., Hurwitz, B. L., Sanderson, M. J., Ware, D. H., Wing, R. A., Stein, L. D. (2010) Phylogenomic analysis of BAC-end sequence libraries in Oryza (Poaceae). Systematic Botany, 35 (3). pp. 512-523.

D

Dalloul, R. A., Long, J. A., Zimin, A. V., Aslam, L., Beal, K., Blomberg, L. A., Bouffard, P., Burt, D. W., Crasta, O., Crooijmans, R. P. M. A., Cooper, K., Coulombe, R. A., De, S., Delany, M. E., Dodgson, J. B., Dong, J. J., Evans, C., Frederickson, K. M., Flicek, P., Florea, L., Folkerts, O., Groenen, M. A. M., Harkins, T. T., Herrero, J., Hoffmann, S., Megens, H. J., Jiang, A., de Jong, P., Kaiser, P., Kim, H., Kim, K. W., Kim, S., Langenberger, D., Lee, M. K., Lee, T., Mane, S., Marcais, G., Marz, M., McElroy, A. P., Modise, T., Nefedov, M., Notredame, C., Paton, I. R., Payne, W. S., Pertea, G., Prickett, D., Puiu, D., Qioa, D., Raineri, E., Ruffier, M., Salzberg, S. L., Schatz, M. C., Scheuring, C., Schmidt, C. J., Schroeder, S., Searle, S. M. J., Smith, E. J., Smith, J., Sonstegard, T. S., Stadler, P. F., Tafer, H., Tu, Z., van Tassell, C. P., Vilella, A. J., Williams, K. P., Yorke, J. A., Zhang, L., Zhang, H. B., Zhang, X., Zhang, Y., Reed, K. M. (2010) Multi-platform next-generation sequencing of the domestic Turkey (Meleagris gallopavo): Genome assembly and analysis. PLoS Biology, 8 (9). ISSN 1544-9173

Diffley, J. F., Stillman, B. (1989) Similarity between the transcriptional silencer binding proteins ABF1 and RAP1. Science, 246 (4933). pp. 1034-8. ISSN 0036-8075

Donia, M. S., Fricke, W. F., Partensky, F., Cox, J., Elshahawi, S. I., White, J. R., Phillippy, A. M., Schatz, M. C., Piel, J., Haygood, M. G., Ravel, J., Schmidt, E. W. (2011) Complex microbiome underlying secondary and primary metabolism in the tunicate-Prochloron symbiosis. Proceedings of the National Academy of Sciences of the United States of America, 108 (51). E1423-E1432. ISSN 00278424 (ISSN)

Dowell, R. D., Jokerst, R. M., Day, A., Eddy, S. R., Stein, L. (2001) The distributed annotation system. BMC Bioinformatics, 2. p. 7.

de la Bastide, M., McCombie, W. R. (2007) Assembling genomic DNA sequences with PHRAP. Current Protocols in Bioinformatics (Unit 1). ISSN 1934-340X (Electronic)1934-3396 (Linking)

E

Earl, D., Bradnam, K., St. John, J., Darling, A., Lin, D., Fass, J., Yu, H. O. K., Buffalo, V., Zerbino, D. R., Diekhans, M., Nguyen, N., Ariyaratne, P. N., Sung, W. K., Ning, Z., Haimel, M., Simpson, J. T., Fonseca, N. A., Birol, I., Docking, T. R., Ho, I. Y., Rokhsar, D. S., Chikhi, R., Lavenier, D., Chapuis, G., Naquin, D., Maillet, N., Schatz, M. C., Kelley, D. R., Phillippy, A. M., Koren, S., Yang, S. P., Wu, W., Chou, W. C., Srivastava, A., Shaw, T. I., Ruby, J. G., Skewes-Cox, P., Betegon, M., Dimon, M. T., Solovyev, V., Seledtsov, I., Kosarev, P., Vorobyev, D., Ramirez-Gonzalez, R., Leggett, R., MacLean, D., Xia, F., Luo, R., Li, Z., Xie, Y., Liu, B., Gnerre, S., MacCallum, I., Przybylski, D., Ribeiro, F. J., Sharpe, T., Hall, G., Kersey, P. J., Durbin, R., Jackman, S. D., Chapman, J. A., Huang, X., DeRisi, J. L., Caccamo, M., Li, Y., Jaffe, D. B., Green, R. E., Haussler, D., Korf, I., Paten, B. (2011) Assemblathon 1: A competitive assessment of de novo short read assembly methods. Genome Research, 21 (12). pp. 2224-2241. ISSN 10889051 (ISSN)

Eichler, E. E., Nickerson, D. A., Altshuler, D., Bowcock, A. M., Brooks, L. D., Carter, N. P., Church, D. M., Felsenfeld, A., Guyer, M., Lee, C., Lupski, J. R., Mullikin, J. C., Pritchard, J. K., Sebat, J., Sherry, S. T., Smith, D., Valle, D., Waterston, R. H. (2007) Completing the map of human genetic variation. Nature, 447 (7141). pp. 161-165. ISSN 0028-0836

Erlich, Y., Chang, K., Gordon, A., Ronen, R., Navon, O., Rooks, M., Hannon, G. J. (2009) DNA Sudoku - Harnessing high-throughput sequencing for multiplexed specimen analysis. Genome Research, 19 (7). pp. 1243-1253. ISSN 10889051 (ISSN)

Erlich, Y., Edvardson, S., Hodges, E., Zenvirt, S., Thekkat, P., Shaag, A., Dor, T., Hannon, G. J., Elpeleg, O. (2011) Exome sequencing and disease-network analysis of a single family implicate a mutation in KIF1A in hereditary spastic paraparesis. Genome Research, 21 (5). pp. 658-664. ISSN 1088-9051

Erlich, Y., Gordon, A., Brand, M., Hannon, G. J., Mitra, P. P. (2010) Compressed genotyping. IEEE Transactions on Information Theory, 56 (2). pp. 706-723.

Eveland, A. L., Satoh-Nagasawa, N., Goldschmidt, A., Meyer, S., Beatty, M., Sakai, H., Ware, D. H., Jackson, D. P. (2010) Digital Gene Expression Signatures for Maize Development. Plant Physiology, 154 (3). pp. 1024-1039. ISSN 0032-0889

F

Faith, J. J., Olson, A. J., Gardner, T. S., Sachidanandam, R. (2007) Lightweight genome viewer: portable software for browsing genomics data in its chromosomal context. BMC Bioinformatics, 8. p. 344. ISSN 1471-2105

Feng, X., Grossman, R., Stein, L. D. (2011) PeakRanger: A cloud-enabled peak caller for ChIP-seq data. Bmc Bioinformatics, 12. ISSN 1471-2105

Fitzgerlad, G. F., Daly, C., Brown, L. R., Gingeras, T. R. (1982) ScrFi: A new sequence-specific endonuclease from Streptococcus cremoris. Nucleic Acids Research, 10 (24). pp. 8171-8179. ISSN 03051048 (ISSN)

G

Gaasterland, T., Sczyrba, A., Thomas, E., Aytekin-Kurban, G., Gordon, P., Sensen, C. W. (2000) MAGPIE/EGRET annotation of the 2.9-Mb Drosophila melanogaster Adh region. Genome Research, 10 (4). pp. 502-510. ISSN 1088-9051

Ganapathy, G., Howard, J. T., Ward, J. M., Li, J., Li, B., Li, Y., Xiong, Y., Zhang, Y., Zhou, S., Schwartz, D. C., Schatz, M., Aboukhalil, R., Fedrigo, O., Bukovnik, L., Wang, T., Wray, G., Rasolonjatovo, I., Winer, R., Knight, J. R., Koren, S., Warren, W. C., Zhang, G., Phillippy, A. M., Jarvis, E. D. (2014) High-coverage sequencing and annotated assemblies of the budgerigar genome. Gigascience, 3. p. 11. ISSN 2047-217x

Gao, M., Li, G., Potter, D., McCombie, W. R., Quiros, C. F. (2006) Comparative analysis of methylthioalkylmalate synthase (MAM) gene family and flanking DNA sequences in Brassica oleracea and Arabidopsis thaliana. Plant Cell Reports, 25 (6). pp. 592-598. ISSN 07217714

Gao, M. Q., Li, G. Y., McCombie, W. R., Quiros, C. F. (2005) Comparative analysis of a transposon-rich Brassica oleracea BAC clone with its corresponding sequence in A-thaliana. Theoretical and Applied Genetics, 111 (5). pp. 949-955. ISSN 0040-5752

Gingeras, T. R. (1980) Restriction endonucleases and their recognition sequences. Biochemical Society Transactions, 8 (3). pp. 397-398. ISSN 03005127 (ISSN)

Gingeras, T. R., Ghandour, G., Wang, E., Berno, A., Small, P. M., Drobniewski, F., Alland, D., Desmond, E., Holodniy, M., Drenkow, J. (1998) Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic Mycobacterium DNA arrays. Genome Research, 8 (5). pp. 435-448. ISSN 10889051 (ISSN)

Gingeras, T. R., Rice, P., Roberts, R. J. (1982) A semi-automated method for the reading of nucleic acid sequencing gels. Nucleic Acids Research, 10 (1). pp. 103-114. ISSN 03051048 (ISSN)

Gingeras, T. R., Roberts, R. J. (1980) Steps toward computer analysis of nucleotide sequences. Science, 209 (4463). pp. 1322-1328. ISSN 00368075 (ISSN)

Gingeras, T. R., Sciaky, D., Gelinas, R. E., Bing-Dong, J., Yen, C. E., Kelly, M. M., Bullock, P. A., Parsons, B. L., O'Neill, K., Roberts, R. J. (1982) Nucleotide sequences from the adenovirus-2 genome. Journal of Biological Chemistry, 257 (22). pp. 13475-13491. ISSN 00219258 (ISSN)

Guatelli, J. C., Gingeras, T. R., Richman, D. D. (1989) Nucleic acid amplification in vitro: Detection of sequences with low copy numbers and application to diagnosis of human immunodeficiency virus type 1 infection. Clinical Microbiology Reviews, 2 (2). pp. 217-226. ISSN 08938512 (ISSN)

Guggenheimer, R. A., Stillman, B. W., Nagata, K., Tamanoi, F., Hurwitz, J. (1984) DNA-Sequences Required for the Invitro Replication of Adenovirus DNA. Proceedings of the National Academy of Sciences of the United States of America-Biological Sciences, 81 (10). pp. 3069-3073. ISSN 0027-8424

Gymrek, M., Erlich, Y. (2011) Using DNA sequencers as stethoscopes. Genome Med, 3 (11). p. 73. ISSN 1756-994X (Electronic)

H

Harris, R. A., Wang, T., Coarfa, C., Nagarajan, R. P., Hong, C., Downey, S. L., Johnson, B. E., Fouse, S. D., Delaney, A., Zhao, Y., Olshen, A., Ballinger, T., Zhou, X., Forsberg, K. J., Gu, J., Echipare, L., O'Geen, H., Lister, R., Pelizzola, M., Xi, Y., Epstein, C. B., Bernstein, B. E., Hawkins, R. D., Ren, B., Chung, W. Y., Gu, H., Bock, C., Gnirke, A., Zhang, M. Q., Haussler, D., Ecker, J. R., Li, W., Farnham, P. J., Waterland, R. A., Meissner, A., Marra, M. A., Hirst, M., Milosavljevic, A., Costello, J. F. (2010) Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications. Nature Biotechnology, 28 (10). pp. 1097-1105.

Hass-Jacobus, B. L., Futrell-Griggs, M., Abernathy, B., Westerman, R., Goicoechea, J. L., Stein, J., Klein, P., Hurwitz, B., Zhou, B., Rakhshan, F., Sanyal, A., Gill, N., Lin, J. Y., Walling, J. G., Luo, M. Z., Ammiraju, J. S. S., Kudrna, D., Kim, H. R., Ware, D., Wing, Rod A., San Miguel, P., Jackson, S. A. (2006) Integration of hybridization-based markers (overgos) into physical maps for comparative and evolutionary explorations in the genus Oryza and in Sorghum. BMC Genomics, 7. p. 199. ISSN 14712164

Healy, J., Thomas, E. E., Schwartz, J. T., Wigler, M. H. (2003) Annotating large genomes with exact word matches. Genome Research, 13 (10). pp. 2306-2315. ISSN 1088-9051

Henderson, S. C., Spector, D. L. (1992) Nonrandom Arrangement of DNA-Sequences in Diploid Human-Cells. Molecular Biology of the Cell, 3 (Suppl). A137-A137. ISSN 1059-1524

Herbert, M. R., Russo, J. P., Yang, S., Roohi, Jasmin, Blaxill, M., Kahler, S. G., Cremer, L., Hatchwell, Eli (2006) Autism and environmental genomics. NeuroToxicology, 27 (5). pp. 671-684. ISSN 0161813X

Hill, B. T., Skowronski, J. (2005) Human N-myristoyltransferases form stable complexes with lentiviral nef and other viral and cellular substrate proteins. J Virol, 79 (2). pp. 1133-41. ISSN 0022-538X (Print)

Hodges, E., Rooks, M., Xuan, Z., Bhattacharjee, A., Gordon, D. B., Brizuela, L., McCombie, W. R., Hannon, G. J. (2009) Hybrid selection of discrete genomic intervals on custom-designed microarrays for massively parallel sequencing. Nature Protocols, 4 (6). pp. 960-974. ISSN 1754-2189

J

Jackson, D. P., Culianez-Macia, F., Prescott, A. G., Roberts, K., Martin, C. (1991) Expression patterns of myb genes from Antirrhinum flowers. Plant Cell, 3 (2). pp. 115-125. ISSN 1040-4651 (Print)1040-4651 (Linking)

Jiang, B., Zhang, M. Q., Zhang, X. (2007) OSCAR: one-class SVM for accurate recognition of cis-elements. Bioinformatics, 23 (21). pp. 2823-8. ISSN 1460-2059 (Electronic)

Jiang, L. C., Schlesinger, F. J., Davis, C. A., Zhang, Y., Li, R. H., Salit, M., Gingeras, T. R., Oliver, B. (2011) Synthetic spike-in standards for RNA-seq experiments. Genome Research, 21 (9). pp. 1543-1551. ISSN 1088-9051

K

Kampa, D., Cheng, J., Kapranov, P., Yamanaka, M., Brubaker, S., Cawley, S., Drenkow, J., Piccolboni, A., Bekiranov, S., Helt, G., Tammana, H., Gingeras, T. R. (2004) Novel RNAs identified from a in-depth analysis of the transcriptome of human chromosomes 21 and 22. Genome Research, 14 (3). pp. 331-342. ISSN 10889051 (ISSN)

Karginov, F. V., Hannon, G. J. (2010) The CRISPR System: Small RNA-Guided Defense in Bacteria and Archaea. Molecular Cell, 37 (1). pp. 7-19.

Kataoka, T., Broek, D., Wigler, M. H. (1985) DNA sequence and characterization of the S. cerevisiae gene encoding adenylate cyclase. Cell, 43 (2). pp. 493-505. ISSN 0092-8674

Katari, M.t S., Balija, V., Wilson, R. K., Martienssen, R. A., McCombie, W. R. (2005) 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 Research, 15 (4). pp. 496-504. ISSN 10889051 (ISSN)

Kim, H. R., Hurwitz, B. L., Yu, Y., Collura, K., Gill, N., SanMiguel, P., Mullikin, J. C., Maher, C., Nelson, W., Wissotski, M., Braidotti, M., Kudrna, D., Goigochia, J. L., Stein, L. D., Ware, D. H., Jackson, S., Soderlund, C., Wing, R. (2008) Construction, alignment and analysis of 12 framework physical maps that represent the 10 genome types of the genus Oryza. Genome Biology, 9 (2). R45. ISSN 1465-6906

Kingsford, C., Schatz, M. C., Pop, M. (2010) Assembly complexity of prokaryotic genomes using short reads. BMC Bioinformatics, 11. ISSN 14712105 (ISSN)

Kinney, J. B., Murugan, A., Callan, C. G., Cox, E. C. (2010) Using deep sequencing to characterize the biophysical mechanism of a transcriptional regulatory sequence. Proceedings of the National Academy of Sciences of the United States of America, 107 (20). pp. 9158-9163. ISSN 0027-8424

Kundeti, V. K., Rajasekaran, S., Dinh, H., Vaughn, M. W., Thapar, V. (2010) Efficient parallel and out of core algorithms for constructing large bi-directed de Bruijn graphs. BMC Bioinformatics, 11. Artical number 560.

L

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