Genomics of Gene Expression

163 entries « 5 of 9 »
83.

Blaustein, R.; Meyer, J.; Conesa, A.; Lorca, G.; Teplitski, M.

Impacts of abundance of Candidatus Liberibacter on the citrus phyto-microbiome Journal Article

In: PHYTOPATHOLOGY, vol. 106, no. 12, S, pp. 25-26, 2016, ISSN: 0031-949X, (Annual Meeting of the American-Phytopathological-Society (APS), Tampa, FL, JUL 30-AUG 03, 2016).

BibTeX

82.

Furio-Tari, P.; Conesa, A.; Tarazona, S.

RGmatch: matching genomic regions to proximal genes in omics data integration Journal Article

In: BMC BIOINFORMATICS, vol. 17, no. 15, 2016, ISSN: 1471-2105.

Abstract | Links | BibTeX

81.

Panis, D. N. De; Padro, J.; Furio-Tari, P.; Tarazona, S.; Carmona, P. S. Milla; Soto, I. M.; Dopazo, H.; Conesa, A.; Hasson, E.

Transcriptome modulation during host shift is driven by secondary metabolites in desert Drosophila Journal Article

In: MOLECULAR ECOLOGY, vol. 25, no. 18, pp. 4534-4550, 2016, ISSN: 0962-1083.

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80.

Furio-Tari, P.; Tarazona, S.; Gabaldon, T.; Enright, A. J.; Conesa, A.

spongeScan: A web for detecting microRNA binding elements in lncRNA sequences Journal Article

In: NUCLEIC ACIDS RESEARCH, vol. 44, no. W1, pp. W176-W180, 2016, ISSN: 0305-1048.

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79.

Auffray, C.; Balling, R.; Barroso, I.; Bencze, L.; Benson, M.; Bergeron, J.; Bernal-Delgado, E.; Blomberg, N.; Bock, C.; Conesa, A.; Signore, S. Del; Delogne, C.; Devilee, P.; Meglio, A. Di; Eijkemans, M.; Flicek, P.; Graf, N.; Grimm, V.; Guchelaar, H.; Guo, Y.; Gut, I. G.; Hanbury, A.; Hanif, S.; Hilgers, R.; Honrado, A.; Hose, D. R.; Houwing-Duistermaat, J.; Hubbard, T.; Janacek, S. H.; Karanikas, H.; Kievits, T.; Kohler, M.; Kremer, A.; Lanfear, J.; Lengauer, T.; Maes, E.; Meert, T.; Mueller, W.; Nickel, D.; Oledzki, P.; Pedersen, B.; Petkovic, M.; Pliakos, K.; Rattray, M.; i Mas, J. Redon; Schneider, R.; Sengstag, T.; Serra-Picamal, X.; Spek, W.; Vaas, L. A. I.; van Batenburg, O.; Vandelaer, M.; Varnai, P.; Villoslada, P.; Vizcaino, J. A.; Wubbe, J. P. M.; Zanetti, G.

Making sense of big data in health research: Towards an EU action plan Journal Article

In: GENOME MEDICINE, vol. 8, 2016, ISSN: 1756-994X.

Abstract | Links | BibTeX

78.

van der Kloet, F. M.; Sebastian-Leon, P.; Conesa, A.; Smilde, A. K.; Westerhuis, J. A.

Separating common from distinctive variation Journal Article

In: BMC BIOINFORMATICS, vol. 17, no. 5, 2016, ISSN: 1471-2105, (Conference on Statistical Methods for Omics Data Integration and Analysis, Heraklion, GREECE, NOV 10-12, 2014).

Abstract | Links | BibTeX

77.

Okonechnikov, K.; Conesa, A.; Garcia-Alcalde, F.

Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data Journal Article

In: BIOINFORMATICS, vol. 32, no. 2, pp. 292-294, 2016, ISSN: 1367-4803.

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76.

Conesa, A.; Madrigal, P.; Tarazona, S.; Gomez-Cabrero, D.; Cervera, A.; McPherson, A.; Szczesniak, M. W.; Gaffney, D. J.; Elo, L. L.; Zhang, X.; Mortazavi, A.

A survey of best practices for RNA-seq data analysis Journal Article

In: GENOME BIOLOGY, vol. 17, 2016, ISSN: 1474-760X.

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75.

Conesa, Ana; Madrigal, Pedro; Tarazona, Sonia; Gomez-Cabrero, David; Cervera, Alejandra; McPherson, Andrew; Szcześniak, Michał Wojciech; Gaffney, Daniel J; Elo, Laura L; Zhang, Xuegong; Mortazavi, Ali

A survey of best practices for RNA-seq data analysis Journal Article

In: Genome Biol, vol. 17, pp. 13, 2016, ISSN: 1474-760X.

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74.

Tarazona, S.; Furio-Tari, P.; Turra, D.; Pietro, A. Di; Nueda, M. Jose; Ferrer, A.; Conesa, A.

Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package Journal Article

In: NUCLEIC ACIDS RESEARCH, vol. 43, no. 21, 2015, ISSN: 0305-1048.

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73.

Conesa-Zamora, P.; Garcia-Solano, J.; del Carmen Turpin, M.; Sebastian-Leon, P.; Torres-Moreno, D.; Estrada, E.; Tuomisto, A.; Wilce, J.; Maekinen, M. J.; Perez-Guillermo, M.; Conesa, A.

Methylome profiling reveals functions and genes which are differentially methylated in serrated compared to conventional colorectal carcinoma Journal Article

In: CLINICAL EPIGENETICS, vol. 7, 2015, ISSN: 1868-7083.

Abstract | Links | BibTeX

72.

Morin-Adeline, V.; Mueller, K.; Conesa, A.; Slapeta, J.

Comparative RNA-seq analysis of the Tritrichomonas foetus PIG30/1 isolate from pigs reveals close association with Tritrichomonas foetus BP-4 isolate `bovine genotype' Journal Article

In: VETERINARY PARASITOLOGY, vol. 212, no. 3-4, pp. 111-117, 2015, ISSN: 0304-4017.

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71.

Irmer, H.; Tarazona, S.; Sasse, C.; Olbermann, P.; Loeffler, J.; Krappmann, S.; Conesa, A.; Braus, G. H.

RNAseq analysis of Aspergillus fumigatus in blood reveals a just wait and see resting stage behavior Journal Article

In: BMC GENOMICS, vol. 16, 2015, ISSN: 1471-2164.

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70.

de la Fuente, L.; Conesa, A.; Lloret, A.; Badenes, M. Luisa; Rios, G.

Genome-wide changes in histone H3 lysine 27 trimethylation associated with bud dormancy release in peach Journal Article

In: TREE GENETICS & GENOMES, vol. 11, no. 3, 2015, ISSN: 1614-2942.

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69.

Yanez, Y.; Grau, E.; Rodriguez-Cortez, V. C.; Hervas, D.; Vidal, E.; Noguera, R.; Hernandez, M.; Segura, V.; Canete, A.; Conesa, A.; de Mora, J. Font; Castel, V.

Two independent epigenetic biomarkers predict survival in neuroblastoma Journal Article

In: CLINICAL EPIGENETICS, vol. 7, 2015, ISSN: 1868-7083.

Abstract | Links | BibTeX

68.

Terol, Javier; Carbonell, Jos Atextcopyright; Alonso, Roberto; Tadeo, Francisco R.; Herrero-Ortega, Amparo; Atextpmez, Victoria Iba; Atextpmoz, Juan Vicente Mu; A­a, Antonio L Atextthreesuperiorpez-Garc; Estornell, Leandro H.; Colmenero-Flores, Jos Atextcopyright M.; Conesa, Ana; Dopazo, Joaqu A­n; Atextthreesuperiorn, Manuel Tal

SEQUENCING OF 150 CITRUS VARIETIES: LINKING GENOTYPES TO PHENOTYPES Proceedings Article

In: ActaHortic., pp. 585-589, International Society for Horticultural Science (ISHS), Leuven, Belgium, 2015, ISSN: 2406-6168.

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67.

Morin-Adeline, V.; Lomas, R.; O'Meally, D.; Stack, C.; Conesa, A.; Slapeta, J.

Comparative transcriptomics reveals striking similarities between the bovine and feline isolates of Tritrichomonas foetus: consequences for in silico drug-target identification Journal Article

In: BMC GENOMICS, vol. 15, 2014, ISSN: 1471-2164.

Abstract | Links | BibTeX

66.

Sebastian-Leon, P.; Vidal, E.; Minguez, P.; Conesa, A.; Tarazona, S.; Amadoz, A.; Armero, C.; Salavert, F.; Vidal-Puig, A.; Montaner, D.; Dopazo, J.

Understanding disease mechanisms with models of signaling pathway activities Journal Article

In: BMC SYSTEMS BIOLOGY, vol. 8, 2014, ISSN: 1752-0509.

Abstract | Links | BibTeX

65.

Su, Z.; Labaj, P. P.; Li, S.; Thierry-Mieg, J.; Thierry-Mieg, D.; Shi, W.; Wang, C.; Schroth, G. P.; Setterquist, R. A.; Thompson, J. F.; Jones, W. D.; Xiao, W.; Xu, W.; Jensen, R. V.; Kelly, R.; Xu, J.; Conesa, A.; Furlanello, C.; Gao, H.; Hong, H.; Jafari, N.; Letovsky, S.; Liao, Y.; Lu, F.; Oakeley, E. J.; Peng, Z.; Praul, C. A.; Santoyo-Lopez, J.; Scherer, A.; Shi, T.; Smyth, G. K.; Staedtler, F.; Sykacek, P.; Tan, X.; Thompson, E. A.; Vandesompele, J.; Wang, M. D.; Wang, J.; Wolfinger, R. D.; Zavadil, J.; Auerbach, S. S.; Bao, W.; Binder, H.; Blomquist, T.; Brilliant, M. H.; Bushel, P. R.; Cain, W.; Catalano, J. G.; Chang, C.; Chen, T.; Chen, G.; Chen, R.; Chierici, M.; Chu, T.; Clevert, D.; Deng, Y.; Derti, A.; Devanarayan, V.; Dong, Z.; Dopazo, J.; Du, T.; Fang, H.; Fang, Y.; Fasold, M.; Fernandez, A.; Fischer, M.; Furio-Tari, P.; Fuscoe, J. C.; Caiment, F.; Gaj, S.; Gandara, J.; Gao, H.; Ge, W.; Gondo, Y.; Gong, B.; Gong, M.; Gong, Z.; Green, B.; Guo, C.; Guo, L.; Guo, L.; Hadfield, J.; Hellemans, J.; Hochreiter, S.; Jia, M.; Jian, M.; Johnson, C. D.; Kay, S.; Kleinjans, J.; Lababidi, S.; Levy, S.; Li, Q.; Li, L.; Li, L.; Li, P.; Li, Y.; Li, H.; Li, J.; Li, S.; Lin, S. M.; Lopez, F. J.; Lu, X.; Luo, H.; Ma, X.; Meehan, J.; Megherbi, D. B.; Mei, N.; Mu, B.; Ning, B.; Pandey, A.; Perez-Florido, J.; Perkins, R. G.; Peters, R.; Phan, J. H.; Pirooznia, M.; Qian, F.; Qing, T.; Rainbow, L.; Rocca-Serra, P.; Sambourg, L.; Sansone, S.; Schwartz, S.; Shah, R.; Shen, J.; Smith, T. M.; Stegle, O.; Stralis-Pavese, N.; Stupka, E.; Suzuki, Y.; Szkotnicki, L. T.; Tinning, M.; Tu, B.; van Deft, J.; Vela-Boza, A.; Venturini, E.; Walker, S. J.; Wan, L.; Wang, W.; Wang, J.; Wang, J.; Wieben, E. D.; Willey, J. C.; Wu, P.; Xuan, J.; Yang, Y.; Ye, Z.; Yin, Y.; Yu, Y.; Yuan, Y.; Zhang, J.; Zhang, K. K.; Zhang, W.; Zhang, W.; Zhang, Y.; Zhao, C.; Zheng, Y.; Zhou, Y.; Zumbo, P.; Tong, W.; Kreil, D. P.; Mason, C. E.; Shi, L.

A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium Journal Article

In: NATURE BIOTECHNOLOGY, vol. 32, no. 9, pp. 903-914, 2014, ISSN: 1087-0156.

Abstract | Links | BibTeX

64.

Nueda, M. J.; Tarazona, S.; Conesa, A.

Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series Journal Article

In: BIOINFORMATICS, vol. 30, no. 18, pp. 2598-2602, 2014, ISSN: 1367-4803.

Abstract | Links | BibTeX

163 entries « 5 of 9 »