-
1
-
-
1542399989
-
Fatigo: A web tool for finding significant associations of gene ontology terms with groups of genes
-
Al-Shahrour, F., Diaz-Uriarte, R. and Dopazo, J. (2004) FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes, Bioinformatics, 20, 578-580.
-
(2004)
Bioinformatics
, vol.20
, pp. 578-580
-
-
Al-Shahrour, F.1
Diaz-Uriarte, R.2
Dopazo, J.3
-
2
-
-
77949430343
-
The diana-mirextra web server: From gene expression data to microrna function
-
Alexiou, P., Maragkakis, M., Papadopoulos, G.L., Simmosis, V.A., Zhang, L. and Hatzigeorgiou, A.G. (2010) The DIANA-mirExTra web server: from gene expression data to microRNA function, PLoS One, 5, e9171.
-
(2010)
Plos One
, vol.5
-
-
Alexiou, P.1
Maragkakis, M.2
Papadopoulos, G.L.3
Simmosis, V.A.4
Zhang, L.5
Hatzigeorgiou, A.G.6
-
3
-
-
28044471565
-
Microrna functions in animal development and human disease
-
Alvarez-Garcia, I. and Miska, E.A. (2005) MicroRNA functions in animal development and human disease, Development, 132, 4653-4662.
-
(2005)
Development
, vol.132
, pp. 4653-4662
-
-
Alvarez-Garcia, I.1
Miska, E.A.2
-
4
-
-
77958471357
-
Differential expression analysis for sequence count data
-
Anders, S. and Huber, W. (2010) Differential expression analysis for sequence count data, Genome Biol, 11, R106.
-
(2010)
Genome Biol
, vol.11
, pp. 106
-
-
Anders, S.1
Huber, W.2
-
5
-
-
67849126820
-
Geneset2mirna: Finding the signature of cooperative mirna activities in the gene lists
-
Antonov, A.V., Dietmann, S., Wong, P., Lutter, D. and Mewes, H.W. (2009) GeneSet2miRNA: finding the signature of cooperative miRNA activities in the gene lists, Nucleic Acids Res, 37, W323-328.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. W323-W328
-
-
Antonov, A.V.1
Dietmann, S.2
Wong, P.3
Lutter, D.4
Mewes, H.W.5
-
6
-
-
39849111033
-
Mirnaminer: A tool for homologous microrna gene search
-
Artzi, S., Kiezun, A. and Shomron, N. (2008) miRNAminer: a tool for homologous microRNA gene search, BMC Bioinformatics, 9, 39.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 39
-
-
Artzi, S.1
Kiezun, A.2
Shomron, N.3
-
7
-
-
0030681260
-
The significance of digital gene expression profiles
-
Audic, S. and Claverie, J.M. (1997) The significance of digital gene expression profiles, Genome Res, 7, 986-995.
-
(1997)
Genome Res
, vol.7
, pp. 986-995
-
-
Audic, S.1
Claverie, J.M.2
-
8
-
-
49949116902
-
The impact of micrornas on protein output
-
Baek, D., Villen, J., Shin, C., Camargo, F.D., Gygi, S.P. and Bartel, D.P. (2008) The impact of microRNAs on protein output, Nature, 455, 64-71.
-
(2008)
Nature
, vol.455
, pp. 64-71
-
-
Baek, D.1
Villen, J.2
Shin, C.3
Camargo, F.D.4
Gygi, S.P.5
Bartel, D.P.6
-
9
-
-
55049135859
-
Microrna discovery and profiling in human embryonic stem cells by deep sequencing of small rna libraries
-
Bar, M., Wyman, S.K., Fritz, B.R., Qi, J., Garg, K.S., Parkin, R.K., Kroh, E.M., Bendoraite, A., Mitchell, P.S., Nelson, A.M., Ruzzo, W.L., Ware, C., Radich, J.P., Gentleman, R., Ruohola-Baker, H. and Tewari, M. (2008) MicroRNA discovery and profiling in human embryonic stem cells by deep sequencing of small RNA libraries, Stem Cells, 26, 2496-2505.
-
(2008)
Stem Cells
, vol.26
, pp. 2496-2505
-
-
Bar, M.1
Wyman, S.K.2
Fritz, B.R.3
Qi, J.4
Garg, K.S.5
Parkin, R.K.6
Kroh, E.M.7
Bendoraite, A.8
Mitchell, P.S.9
Nelson, A.M.10
Ruzzo, W.L.11
Ware, C.12
Radich, J.P.13
Gentleman, R.14
Ruohola-Baker, H.15
Tewari, M.16
-
10
-
-
22844440427
-
Identification of hundreds of conserved and nonconserved human micrornas
-
Bentwich, I., Avniel, A., Karov, Y., Aharonov, R., Gilad, S., Barad, O., Barzilai, A., Einat, P., Einav, U., Meiri, E., Sharon, E., Spector, Y. and Bentwich, Z. (2005) Identification of hundreds of conserved and nonconserved human microRNAs, Nat Genet, 37, 766-770.
-
(2005)
Nat Genet
, vol.37
, pp. 766-770
-
-
Bentwich, I.1
Avniel, A.2
Karov, Y.3
Aharonov, R.4
Gilad, S.5
Barad, O.6
Barzilai, A.7
Einat, P.8
Einav, U.9
Meiri, E.10
Sharon, E.11
Spector, Y.12
Bentwich, Z.13
-
11
-
-
11844262661
-
Phylogenetic shadowing and computational identification of human microrna genes
-
Berezikov, E., Guryev, V., van de Belt, J., Wienholds, E., Plasterk, R.H. and Cuppen, E. (2005) Phylogenetic shadowing and computational identification of human microRNA genes, Cell, 120, 21-24.
-
(2005)
Cell
, vol.120
, pp. 21-24
-
-
Berezikov, E.1
Guryev, V.2
Van De Belt, J.3
Wienholds, E.4
Plasterk, R.H.5
Cuppen, E.6
-
12
-
-
78650281342
-
New methods for next generation sequencing based microrna expression profiling
-
Buermans, H.P., Ariyurek, Y., van Ommen, G., den Dunnen, J.T. and t Hoen, P.A. (2010) New methods for next generation sequencing based microRNA expression profiling, BMC Genomics, 11, 716.
-
(2010)
BMC Genomics
, vol.11
, pp. 716
-
-
Buermans, H.P.1
Ariyurek, Y.2
Van Ommen, G.3
Den Dunnen, J.T.4
T Hoen, P.A.5
-
13
-
-
69249147045
-
Expression profiling of micrornas by deep sequencing
-
Creighton, C.J., Reid, J.G. and Gunaratne, P.H. (2009) Expression profiling of microRNAs by deep sequencing, Brief Bioinform, 10, 490-497.
-
(2009)
Brief Bioinform
, vol.10
, pp. 490-497
-
-
Creighton, C.J.1
Reid, J.G.2
Gunaratne, P.H.3
-
14
-
-
33644853907
-
The colorectal micrornaome
-
Cummins, J.M., He, Y., Leary, R.J., Pagliaiini, R., Diaz, L.A., Jr., Sjoblom, T., Barad, O., Bentwich, Z., Szafranska, A.E., Labourier, E., Raymond, C.K., Roberts, B.S., Juhl, H., Kinzler, K.W., Vogelstein, B. and Velculescu, V.E. (2006) The colorectal microRNAome, Proc Natl Acad Sci USA, 103, 3687-3692.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 3687-3692
-
-
Cummins, J.M.1
He, Y.2
Leary, R.J.3
Pagliaiini, R.4
Diaz, L.A.5
Sjoblom, T.6
Barad, O.7
Bentwich, Z.8
Szafranska, A.E.9
Labourier, E.10
Raymond, C.K.11
Roberts, B.S.12
Juhl, H.13
Kinzler, K.W.14
Vogelstein, B.15
Velculescu, V.E.16
-
15
-
-
67749132423
-
Argonaute hits-clip decodes microrna-mrna interaction maps
-
Chi, S.W., Zang, J.B., Mele, A. and Darnell, R.B. (2009) Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps, Nature, 460, 479-486.
-
(2009)
Nature
, vol.460
, pp. 479-486
-
-
Chi, S.W.1
Zang, J.B.2
Mele, A.3
Darnell, R.B.4
-
16
-
-
32144438833
-
Identification of plant microrna homologs
-
Dezulian, T., Remmert, M., Palatnik, J.F., Weigel, D. and Huson, D.H. (2006) Identification of plant microRNA homologs, Bioinformatics, 22, 359-360.
-
(2006)
Bioinformatics
, vol.22
, pp. 359-360
-
-
Dezulian, T.1
Remmert, M.2
Palatnik, J.F.3
Weigel, D.4
Huson, D.H.5
-
17
-
-
33645294070
-
Oncomirs - micrornas with a role in cancer
-
Esquela-Kerscher, A. and Slack, FJ. (2006) Oncomirs - microRNAs with a role in cancer, Nat Rev Cancer, 6, 259-269.
-
(2006)
Nat Rev Cancer
, vol.6
, pp. 259-269
-
-
Esquela-Kerscher, A.1
Slack, F.J.2
-
18
-
-
41849084855
-
Discovering micrornas from deep sequencing data using mirdeep
-
Friedlander, M.R., Chen, W., Adamidi, C., Maaskola, J., Einspanier, R., Knespel, S. and Rajewsky, N. (2008) Discovering microRNAs from deep sequencing data using miRDeep, Nat Biotechnol, 26, 407-415.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 407-415
-
-
Friedlander, M.R.1
Chen, W.2
Adamidi, C.3
Maaskola, J.4
Einspanier, R.5
Knespel, S.6
Rajewsky, N.7
-
19
-
-
58149191274
-
Rfam: Updates to the rna families database
-
Gardner, P.P., Daub, J., Tate, J.G., Nawrocki, E.P., Kolbe, D.L., Lindgreen, S., Wilkinson, A.C., Finn, R.D., Griffiths-Jones, S., Eddy, S.R. and Bateman, A. (2009) Rfam: updates to the RNA families database, Nucleic Acids Res, 37, D136-140.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D136-D140
-
-
Gardner, P.P.1
Daub, J.2
Tate, J.G.3
Nawrocki, E.P.4
Kolbe, D.L.5
Lindgreen, S.6
Wilkinson, A.C.7
Finn, R.D.8
Griffiths-Jones, S.9
Eddy, S.R.10
Bateman, A.11
-
20
-
-
38549150275
-
Mirbase: Tools for microrna genomics
-
Griffiths-Jones, S., Saini, H.K., van Dongen, S. and Enright, A.J. (2008) miRBase: tools for microRNA genomics, Nucleic Acids Res, 36, D154-158.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D154-D158
-
-
Griffiths-Jones, S.1
Saini, H.K.2
Van Dongen, S.3
Enright, A.J.4
-
21
-
-
67849114241
-
Miranalyzer: A microrna detection and analysis tool for next-generation sequencing experiments
-
Hackenberg, M., Sturm, M., Langenberger, D., Falcon-Perez, J.M. and Aransay, A.M. (2009) miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments, Nucleic Acids Res, 37, W68-76.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. W68-W76
-
-
Hackenberg, M.1
Sturm, M.2
Langenberger, D.3
Falcon-Perez, J.M.4
Aransay, A.M.5
-
22
-
-
77954304695
-
Dsap: Deepsequencing small rna analysis pipeline
-
Huang, P.J., Liu, Y.C., Lee, C.C., Lin, W.C., Gan, R.R., Lyu, P.C. and Tang, P. (2010) DSAP: deepsequencing small RNA analysis pipeline, Nucleic Acids Res, 38, 385-391.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 385-391
-
-
Huang, P.J.1
Liu, Y.C.2
Lee, C.C.3
Lin, W.C.4
Gan, R.R.5
Lyu, P.C.6
Tang, P.7
-
23
-
-
38349097919
-
Mirfinder: An improved approach and software implementation for genome-wide fast microrna precursor scans
-
Huang, T.H., Fan, B., Rothschild, M.F., Hu, Z.L., Li, K. and Zhao, S.H. (2007) MiRFinder: an improved approach and software implementation for genome-wide fast microRNA precursor scans, BMC Bioinformatics, 8, 341.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 341
-
-
Huang, T.H.1
Fan, B.2
Rothschild, M.F.3
Hu, Z.L.4
Li, K.5
Zhao, S.H.6
-
24
-
-
34547596338
-
Mipred: Classification of real and pseudo microrna precursors using random forest prediction model with combined features
-
Jiang, P., Wu, H., Wang, W., Ma, W., Sun, X. and Lu, Z. (2007) MiPred: classification of real and pseudo microRNA precursors using random forest prediction model with combined features, Nucleic Acids Res, 35, 339-344.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 339-344
-
-
Jiang, P.1
Wu, H.2
Wang, W.3
Ma, W.4
Sun, X.5
Lu, Z.6
-
25
-
-
42349111552
-
A universal classification of eukaryotic transposable elements implemented in repbase
-
author reply 414
-
Kapitonov, V.V. and Jurka, J. (2008) A universal classification of eukaryotic transposable elements implemented in Repbase, Nat Rev Genet, 9, 411-412; author reply 414.
-
(2008)
Nat Rev Genet
, vol.9
, pp. 411-412
-
-
Kapitonov, V.V.1
Jurka, J.2
-
26
-
-
78651293534
-
Mirbase: Integrating microrna annotation and deep-sequencing data
-
Kozomara, A. and Griffiths-Jones, S. (2011) miRBase: integrating microRNA annotation and deep-sequencing data, Nucleic Acids Res, 39, D152-157.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. D152-D157
-
-
Kozomara, A.1
Griffiths-Jones, S.2
-
27
-
-
0035955374
-
Identification of novel genes coding for small expressed rnas
-
Lagos-Quintana, M., Rauhut, R., Lendeckel, W. and Tuschl, T. (2001) Identification of novel genes coding for small expressed RNAs, Science, 294, 853-858.
-
(2001)
Science
, vol.294
, pp. 853-858
-
-
Lagos-Quintana, M.1
Rauhut, R.2
Lendeckel, W.3
Tuschl, T.4
-
28
-
-
34250877841
-
A mammalian microrna expression atlas based on small rna library sequencing
-
Landgraf, P., Rusu, M., Sheridan, R., Sewer, A., Iovino, N., Aravin, A., Pfeffer, S., Rice, A., Kamphorst, A.O., Landthaler, M., Lin, C., Socci, N.D., Hermida, L., Fulci, V., Chiaretti, S., Foa, R., Schliwka, J., Fuchs, U., Novosel, A., Muller, R.U., Schermer, B., Bissels, U., Inman, J., Phan, Q., Chien, M., Weir, D.B., Choksi, R., De Vita, G., Frezzetti, D., Trompeter, H.I., Hornung, V., Teng, G., Hartmann, G., Palkovits, M., Di Lauro, R., Wernet, P., Macino, G., Rogler, C.E., Nagle, J.W., Ju, J., Papavasiliou, F.N., Benzing, T., Lichter, P., Tam, W., Brownstein, M.J., Bosio, A., Borkhardt, A., Russo, J.J., Sander, C., Zavolan, M. and Tuschl, T. (2007) A mammalian microRNA expression atlas based on small RNA library sequencing, Cell, 129, 1401-1414.
-
(2007)
Cell
, vol.129
, pp. 1401-1414
-
-
Landgraf, P.1
Rusu, M.2
Sheridan, R.3
Sewer, A.4
Iovino, N.5
Aravin, A.6
Pfeffer, S.7
Rice, A.8
Kamphorst, A.O.9
Landthaler, M.10
Lin, C.11
Socci, N.D.12
Hermida, L.13
Fulci, V.14
Chiaretti, S.15
Foa, R.16
Schliwka, J.17
Fuchs, U.18
Novosel, A.19
Muller, R.U.20
Schermer, B.21
Bissels, U.22
Inman, J.23
Phan, Q.24
Chien, M.25
Weir, D.B.26
Choksi, R.27
De Vita, G.28
Frezzetti, D.29
Trompeter, H.I.30
Hornung, V.31
Teng, G.32
Hartmann, G.33
Palkovits, M.34
Di Lauro, R.35
Wernet, P.36
Macino, G.37
Rogler, C.E.38
Nagle, J.W.39
Ju, J.40
Papavasiliou, F.N.41
Benzing, T.42
Lichter, P.43
Tam, W.44
Brownstein, M.J.45
Bosio, A.46
Borkhardt, A.47
Russo, J.J.48
Sander, C.49
Zavolan, M.50
Tuschl, T.51
more..
-
29
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short dna sequences to the human genome
-
Langmead, B., Trapnell, C., Pop, M. and Salzberg, S.L. (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome, Genome Biol, 10, R25.
-
(2009)
Genome Biol
, vol.10
, pp. 25
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
30
-
-
79951730858
-
Mirontop: Mining micrornas targets across large scale gene expression studies
-
Le Brigand, K., Robbe-Sermesant, K., Mari, B. and Barbry, P. (2010) MiRonTop: mining microRNAs targets across large scale gene expression studies, Bioinformatics, 26, 3131-3132.
-
(2010)
Bioinformatics
, vol.26
, pp. 3131-3132
-
-
Le Brigand, K.1
Robbe-Sermesant, K.2
Mari, B.3
Barbry, P.4
-
31
-
-
0027751663
-
The c. Elegans heterochronic gene lin-4 encodes small rnas with antisense complementarity to lin-14
-
Lee, R.C., Feinbaum, R.L. and Ambros, V. (1993) The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14, Cell, 75, 843-854.
-
(1993)
Cell
, vol.75
, pp. 843-854
-
-
Lee, R.C.1
Feinbaum, R.L.2
Ambros, V.3
-
32
-
-
67649884743
-
Fast and accurate short read alignment with burrows-wheeler transform
-
Li, H. and Durbin, R. (2009) Fast and accurate short read alignment with Burrows-Wheeler transform, Bioinformatics, 25, 1754-1760.
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
33
-
-
77949268292
-
Computational approaches for microrna studies: A review
-
Li, L., Xu, J., Yang, D., Tan, X. and Wang, H. (2010) Computational approaches for microRNA studies: a review, Mamm Genome, 21, 1-12.
-
(2010)
Mamm Genome
, vol.21
, pp. 1-12
-
-
Li, L.1
Xu, J.2
Yang, D.3
Tan, X.4
Wang, H.5
-
34
-
-
0037447334
-
The micrornas of caenorhabditis elegans
-
Lim, L.P., Lau, N.C., Weinstein, E.G., Abdelhakim, A., Yekta, S., Rhoades, M.W., Burge, C.B. and Bartel, D.P. (2003) The microRNAs of Caenorhabditis elegans, Genes Dev, 17, 991-1008.
-
(2003)
Genes Dev
, vol.17
, pp. 991-1008
-
-
Lim, L.P.1
Lau, N.C.2
Weinstein, E.G.3
Abdelhakim, A.4
Yekta, S.5
Rhoades, M.W.6
Burge, C.B.7
Bartel, D.P.8
-
35
-
-
50649089207
-
Rna-seq: An assessment of technical reproducibility and comparison with gene expression arrays
-
Marioni, J.C., Mason, C.E., Mane, S.M., Stephens, M. and Gilad, Y. (2008) RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays, Genome Res, 18, 1509-1517.
-
(2008)
Genome Res
, vol.18
, pp. 1509-1517
-
-
Marioni, J.C.1
Mason, C.E.2
Mane, S.M.3
Stephens, M.4
Gilad, Y.5
-
36
-
-
41649106136
-
Application of massively parallel sequencing to microrna profiling and discovery in human embryonic stem cells
-
Morin, R.D., O&Connor, M.D., Griffith, M., Kuchenbauer, F., Delaney, A., Prabhu, A.L., Zhao, Y., McDonald, H., Zeng, T., Hirst, M., Eaves, C.J. and Marra, M.A. (2008) Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells, Genome Res, 18, 610-621.
-
(2008)
Genome Res
, vol.18
, pp. 610-621
-
-
Morin, R.D.1
O’Connor, M.D.2
Griffith, M.3
Kuchenbauer, F.4
Delaney, A.5
Prabhu, A.L.6
Zhao, Y.7
McDonald, H.8
Zeng, T.9
Hirst, M.10
Eaves, C.J.11
Marra, M.A.12
-
37
-
-
46249106990
-
Mapping and quantifying mammalian transcriptomes by rna-seq
-
Mortazavi, A., Williams, B.A., McCue, K., Schaeffer, L. and Wold, B. (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq, Nat Methods, 5, 621-628.
-
(2008)
Nat Methods
, vol.5
, pp. 621-628
-
-
Mortazavi, A.1
Williams, B.A.2
McCue, K.3
Schaeffer, L.4
Wold, B.5
-
38
-
-
52949088691
-
A toolkit for analysing large-scale plant small rna datasets
-
Moxon, S., Schwach, F., Dalmay, T., Maclean, D., Studholme, D.J. and Moulton, V. (2008) A toolkit for analysing large-scale plant small RNA datasets, Bioinformatics, 24, 2252-2253.
-
(2008)
Bioinformatics
, vol.24
, pp. 2252-2253
-
-
Moxon, S.1
Schwach, F.2
Dalmay, T.3
Maclean, D.4
Studholme, D.J.5
Moulton, V.6
-
39
-
-
33747814183
-
Promir ii: A web server for the probabilistic prediction of clustered, nonclustered, conserved and nonconserved micrornas
-
Nam, J.W., Kim, J., Kim, S.K. and Zhang, B.T. (2006) ProMiR II: a web server for the probabilistic prediction of clustered, nonclustered, conserved and nonconserved microRNAs, Nucleic Acids Res, 34, W455-458.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. W455-W458
-
-
Nam, J.W.1
Kim, J.2
Kim, S.K.3
Zhang, B.T.4
-
40
-
-
77951655424
-
Seqbuster, a bioinformatic tool for the processing and analysis of small rnas datasets, reveals ubiquitous mirna modifications in human embryonic cells
-
Pantano, L., Estivill, X. and Marti, E. (2010) SeqBuster, a bioinformatic tool for the processing and analysis of small RNAs datasets, reveals ubiquitous miRNA modifications in human embryonic cells, Nucleic Acids Res, 38, e34.
-
(2010)
Nucleic Acids Res
, vol.34
, pp. 38
-
-
Pantano, L.1
Estivill, X.2
Marti, E.3
-
41
-
-
0034597777
-
Conservation of the sequence and temporal expression of let-7 heterochronic regulatory rna
-
Pasquinelli, A.E., Reinhart, B.J., Slack, F., Martindale, M.Q., Kuroda, M.I., Maller, B., Hayward, D.C., Ball, E.E., Degnan, B., Muller, P., Spring, J., Srinivasan, A., Fishman, M., Finnerty, J., Corbo, J., Levine, M., Leahy, P., Davidson, E. and Ruvkun, G. (2000) Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA, Nature, 408, 86-89.
-
(2000)
Nature
, vol.408
, pp. 86-89
-
-
Pasquinelli, A.E.1
Reinhart, B.J.2
Slack, F.3
Martindale, M.Q.4
Kuroda, M.I.5
Maller, B.6
Hayward, D.C.7
Ball, E.E.8
Degnan, B.9
Muller, P.10
Spring, J.11
Srinivasan, A.12
Fishman, M.13
Finnerty, J.14
Corbo, J.15
Levine, M.16
Leahy, P.17
Davidson, E.18
Ruvkun, G.19
-
42
-
-
46249132980
-
Patman: Rapid alignment of short sequences to large databases
-
Prufer, K., Stenzel, U., Dannemann, M., Green, R.E., Lachmann, M. and Kelso, J. (2008) PatMaN: rapid alignment of short sequences to large databases, Bioinformatics, 24, 1530-1531.
-
(2008)
Bioinformatics
, vol.24
, pp. 1530-1531
-
-
Prufer, K.1
Stenzel, U.2
Dannemann, M.3
Green, R.E.4
Lachmann, M.5
Kelso, J.6
-
43
-
-
3242875708
-
Massively parallel signature sequencing (Mpss) as a tool for in-depth quantitative gene expression profiling in all organisms
-
Reinartz, J., Bruyns, E., Lin, J.Z., Burcham, T., Brenner, S., Bowen, B., Kramer, M. and Woychik, R. (2002) Massively parallel signature sequencing (MPSS) as a tool for in-depth quantitative gene expression profiling in all organisms, Brief Funct Genomic Proteomic, 1, 95-104.
-
(2002)
Brief Funct Genomic Proteomic
, vol.1
, pp. 95-104
-
-
Reinartz, J.1
Bruyns, E.2
Lin, J.Z.3
Burcham, T.4
Brenner, S.5
Bowen, B.6
Kramer, M.7
Woychik, R.8
-
44
-
-
0034708122
-
The 21-nucleotide let-7 rna regulates developmental timing in caenorhabditis elegans
-
Reinhart, B.J., Slack, F.J., Basson, M., Pasquinelli, A.E., Bettinger, J.C., Rougvie, A.E., Horvitz, H.R. and Ruvkun, G. (2000) The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans, Nature, 403, 901-906.
-
(2000)
Nature
, vol.403
, pp. 901-906
-
-
Reinhart, B.J.1
Slack, F.J.2
Basson, M.3
Pasquinelli, A.E.4
Bettinger, J.C.5
Rougvie, A.E.6
Horvitz, H.R.7
Ruvkun, G.8
-
45
-
-
75249087100
-
Edger: A bioconductor package for differential expression analysis of digital gene expression data
-
Robinson, M.D., McCarthy, D.J. and Smyth, G.K. (2010) edgeR: a Bioconductor package for differential expression analysis of digital gene expression data, Bioinformatics, 26, 139-140.
-
(2010)
Bioinformatics
, vol.26
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
46
-
-
77957779549
-
Mirnakey: A software for microrna deep sequencing analysis
-
Ronen, R., Gan, I., Modai, S., Sukacheov, A., Dror, G., Halperin, E. and Shomron, N. (2010) miRNAkey: a software for microRNA deep sequencing analysis, Bioinformatics, 26, 2615-2616.
-
(2010)
Bioinformatics
, vol.26
, pp. 2615-2616
-
-
Ronen, R.1
Gan, I.2
Modai, S.3
Sukacheov, A.4
Dror, G.5
Halperin, E.6
Shomron, N.7
-
47
-
-
49949117302
-
Widespread changes in protein synthesis induced by micrornas
-
Selbach, M., Schwanhausser, B., Thierfelder, N., Fang, Z., Khanin, R. and Rajewsky, N. (2008) Widespread changes in protein synthesis induced by microRNAs, Nature, 455, 58-63.
-
(2008)
Nature
, vol.455
, pp. 58-63
-
-
Selbach, M.1
Schwanhausser, B.2
Thierfelder, N.3
Fang, Z.4
Khanin, R.5
Rajewsky, N.6
-
48
-
-
53649106195
-
Next-generation dna sequencing
-
Shendure, J. and Ji, H. (2008) Next-generation DNA sequencing, Nat Biotechnol, 26, 1135-1145.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1135-1145
-
-
Shendure, J.1
Ji, H.2
-
49
-
-
77952671774
-
Targetspy: A supervised machine learning approach for microrna target prediction
-
Sturm, M., Hackenberg, M., Langenberger, D. and Frishman, D. (2010) TargetSpy: a supervised machine learning approach for microRNA target prediction, BMC Bioinformatics, 11, 292.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 292
-
-
Sturm, M.1
Hackenberg, M.2
Langenberger, D.3
Frishman, D.4
-
50
-
-
75249095274
-
Degseq: An r package for identifying differentially expressed genes from rna-seq data
-
Wang, L., Feng, Z., Wang, X. and Zhang, X. (2010) DEGseq: an R package for identifying differentially expressed genes from RNA-seq data, Bioinformatics, 26, 136-138.
-
(2010)
Bioinformatics
, vol.26
, pp. 136-138
-
-
Wang, L.1
Feng, Z.2
Wang, X.3
Zhang, X.4
-
51
-
-
70449639806
-
Mirexpress: Analyzing high-throughput sequencing data for profiling microrna expression
-
Wang, W.C., Lin, F.M., Chang, W.C., Lin, K.Y., Huang, H.D. and Lin, N.S. (2009) miRExpress: analyzing high-throughput sequencing data for profiling microRNA expression, BMC Bioinformatics, 10, 328.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 328
-
-
Wang, W.C.1
Lin, F.M.2
Chang, W.C.3
Lin, K.Y.4
Huang, H.D.5
Lin, N.S.6
-
52
-
-
26944495173
-
Microrna function in animal development
-
Wienholds, E. and Plasterk, R.H. (2005) MicroRNA function in animal development, FEBS Lett, 579, 5911-5922.
-
(2005)
FEBS Lett
, vol.579
, pp. 5911-5922
-
-
Wienholds, E.1
Plasterk, R.H.2
-
53
-
-
0034053725
-
A greedy algorithm for aligning dna sequences
-
Zhang, Z., Schwartz, S., Wagner, L. and Miller, W. (2000) A greedy algorithm for aligning DNA sequences, J Comput Biol, 7, 203-214.
-
(2000)
J Comput Biol
, vol.7
, pp. 203-214
-
-
Zhang, Z.1
Schwartz, S.2
Wagner, L.3
Miller, W.4
-
54
-
-
77954330416
-
Mirtools: Microrna profiling and discovery based on high-throughput sequencing
-
Zhu, E., Zhao, F., Xu, G., Hou, H., Zhou, L., Li, X., Sun, Z. and Wu, J. (2010) mirTools: microRNA profiling and discovery based on high-throughput sequencing, Nucleic Acids Res, 38, W392-397.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W392-W397
-
-
Zhu, E.1
Zhao, F.2
Xu, G.3
Hou, H.4
Zhou, L.5
Li, X.6
Sun, Z.7
Wu, J.8
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