-
1
-
-
84861904178
-
Genome regulation by long noncoding RNAs
-
Rinn, J. L. and Chang, H. Y. (2012) Genome regulation by long noncoding RNAs. Annu. Rev. Biochem., 81, 145-166.
-
(2012)
Annu. Rev. Biochem.
, vol.81
, pp. 145-166
-
-
Rinn, J.L.1
Chang, H.Y.2
-
2
-
-
84865727393
-
The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression
-
Derrien, T., Johnson, R., Bussotti, G., Tanzer, A., Djebali, S., Tilgner, H., Guernec, G., Martin, D., Merkel, A., Knowles, D. G. et al. (2012) The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res., 22, 1775-1789.
-
(2012)
Genome Res.
, vol.22
, pp. 1775-1789
-
-
Derrien, T.1
Johnson, R.2
Bussotti, G.3
Tanzer, A.4
Djebali, S.5
Tilgner, H.6
Guernec, G.7
Martin, D.8
Merkel, A.9
Knowles, D.G.10
-
3
-
-
84922557838
-
Characterization of stress-responsive lncRNAs in Arabidopsis thaliana by integrating expression, epigenetic and structural features
-
Di, C., Yuan, J., Wu, Y., Li, J., Lin, H., Hu, L., Zhang, T., Qi, Y., Gerstein, M. B., Guo, Y. et al. (2014) Characterization of stress-responsive lncRNAs in Arabidopsis thaliana by integrating expression, epigenetic and structural features. Plant J., 80, 848-861.
-
(2014)
Plant J.
, vol.80
, pp. 848-861
-
-
Di, C.1
Yuan, J.2
Wu, Y.3
Li, J.4
Lin, H.5
Hu, L.6
Zhang, T.7
Qi, Y.8
Gerstein, M.B.9
Guo, Y.10
-
4
-
-
84904248652
-
Comparative analysis of the transcriptome across distant species
-
Gerstein, M. B., Rozowsky, J., Yan, K.-K., Wang, D., Cheng, C., Brown, J. B., Davis, C. A., Hillier, L., Sisu, C., Li, J. J. et al. (2014) Comparative analysis of the transcriptome across distant species. Nature, 512, 445-448.
-
(2014)
Nature
, vol.512
, pp. 445-448
-
-
Gerstein, M.B.1
Rozowsky, J.2
Yan, K.-K.3
Wang, D.4
Cheng, C.5
Brown, J.B.6
Davis, C.A.7
Hillier, L.8
Sisu, C.9
Li, J.J.10
-
5
-
-
84924063355
-
The landscape of long noncoding RNAs in the human transcriptome
-
Iyer, M. K., Niknafs, Y. S., Malik, R., Singhal, U., Sahu, A., Hosono, Y., Barrette, T. R., Prensner, J. R., Evans, J. R., Zhao, S. et al. (2015) The landscape of long noncoding RNAs in the human transcriptome. Nat. Genet., 47, 199-208.
-
(2015)
Nat. Genet.
, vol.47
, pp. 199-208
-
-
Iyer, M.K.1
Niknafs, Y.S.2
Malik, R.3
Singhal, U.4
Sahu, A.5
Hosono, Y.6
Barrette, T.R.7
Prensner, J.R.8
Evans, J.R.9
Zhao, S.10
-
6
-
-
84865760395
-
GENCODE: The reference human genome annotation for The ENCODE Project
-
Harrow, J., Frankish, A., Gonzalez, J. M., Tapanari, E., Diekhans, M., Kokocinski, F., Aken, B. L., Barrell, D., Zadissa, A., Searle, S. et al. (2012) GENCODE: the reference human genome annotation for The ENCODE Project. Genome Res., 22, 1760-1774.
-
(2012)
Genome Res.
, vol.22
, pp. 1760-1774
-
-
Harrow, J.1
Frankish, A.2
Gonzalez, J.M.3
Tapanari, E.4
Diekhans, M.5
Kokocinski, F.6
Aken, B.L.7
Barrell, D.8
Zadissa, A.9
Searle, S.10
-
7
-
-
84950272960
-
LncRNA-ID: Long non-coding RNA IDentification using balanced random forests
-
Achawanantakun, R., Chen, J., Sun, Y. and Zhang, Y. (2015) LncRNA-ID: long non-coding RNA IDentification using balanced random forests. Bioinformatics, 31, 3897-3905.
-
(2015)
Bioinformatics
, vol.31
, pp. 3897-3905
-
-
Achawanantakun, R.1
Chen, J.2
Sun, Y.3
Zhang, Y.4
-
8
-
-
84885223453
-
CNCTDiscriminator: Coding and noncoding transcript discriminator - An excursion through hypothesis learning and ensemble learning approaches
-
Biswas, A. K., Zhang, B., Wu, X. and Gao, J. X. (2013) CNCTDiscriminator: coding and noncoding transcript discriminator - an excursion through hypothesis learning and ensemble learning approaches. J. Bioinform. Comput. Biol., 11, 1342002-1342017.
-
(2013)
J. Bioinform. Comput. Biol.
, vol.11
, pp. 1342002-1342017
-
-
Biswas, A.K.1
Zhang, B.2
Wu, X.3
Gao, J.X.4
-
9
-
-
84891782659
-
Pfam: The protein families database
-
Finn, R. D., Bateman, A., Clements, J., Coggill, P., Eberhardt, R. Y., Eddy, S. R., Heger, A., Hetherington, K., Holm, L., Mistry, J. et al. (2014) Pfam: the protein families database. Nucleic Acids Res., 42, D222-D230.
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D222-D230
-
-
Finn, R.D.1
Bateman, A.2
Clements, J.3
Coggill, P.4
Eberhardt, R.Y.5
Eddy, S.R.6
Heger, A.7
Hetherington, K.8
Holm, L.9
Mistry, J.10
-
10
-
-
34547582418
-
CPC: Assess the protein-coding potential of transcripts using sequence features and support vector machine
-
Kong, L., Zhang, Y., Ye, Z. Q., Liu, X. Q., Zhao, S. Q., Wei, L. and Gao, G. (2007) CPC: assess the protein-coding potential of transcripts using sequence features and support vector machine. Nucleic Acids Res., 35, W345-W349.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. W345-W349
-
-
Kong, L.1
Zhang, Y.2
Ye, Z.Q.3
Liu, X.Q.4
Zhao, S.Q.5
Wei, L.6
Gao, G.7
-
11
-
-
84908133238
-
PLEK: A tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme
-
Li, A., Zhang, J. and Zhou, Z. (2014) PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme. BMC Bioinformatics, 15, 311-320.
-
(2014)
BMC Bioinformatics
, vol.15
, pp. 311-320
-
-
Li, A.1
Zhang, J.2
Zhou, Z.3
-
12
-
-
79959446962
-
PhyloCSF: A comparative genomics method to distinguish protein coding and non-coding regions
-
Lin, M. F., Jungreis, I. and Kellis, M. (2011) PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions. Bioinformatics, 27, i275-i282.
-
(2011)
Bioinformatics
, vol.27
, pp. i275-i282
-
-
Lin, M.F.1
Jungreis, I.2
Kellis, M.3
-
13
-
-
33646488342
-
Distinguishing protein-coding from non-coding RNAs through support vector machines
-
Liu, J., Gough, J. and Rost, B. (2006) Distinguishing protein-coding from non-coding RNAs through support vector machines. PLoS Genet., 2, e29.
-
(2006)
PLoS Genet.
, vol.2
, pp. e29
-
-
Liu, J.1
Gough, J.2
Rost, B.3
-
14
-
-
84884915826
-
Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts
-
Sun, L., Luo, H., Bu, D., Zhao, G., Yu, K., Zhang, C., Liu, Y., Chen, R. and Zhao, Y. (2013) Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts. Nucleic Acids Res., 41, e166.
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. e166
-
-
Sun, L.1
Luo, H.2
Bu, D.3
Zhao, G.4
Yu, K.5
Zhang, C.6
Liu, Y.7
Chen, R.8
Zhao, Y.9
-
15
-
-
84876020023
-
CPAT: Coding-potential assessment tool using an alignment-free logistic regression model
-
Wang, L., Park, H. J., Dasari, S., Wang, S., Kocher, J. P. and Li, W. (2013) CPAT: coding-potential assessment tool using an alignment-free logistic regression model. Nucleic Acids Res., 41, e74.
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. e74
-
-
Wang, L.1
Park, H.J.2
Dasari, S.3
Wang, S.4
Kocher, J.P.5
Li, W.6
-
16
-
-
79953009230
-
RNAcode: Robust discrimination of coding and noncoding regions in comparative sequence data
-
Washietl, S., Findeiss, S., Muller, S. A., Kalkhof, S., Von Bergen, M., Hofacker, I. L., Stadler, P. F. and Goldman, N. (2011) RNAcode: robust discrimination of coding and noncoding regions in comparative sequence data. RNA, 17, 578-594.
-
(2011)
RNA
, vol.17
, pp. 578-594
-
-
Washietl, S.1
Findeiss, S.2
Muller, S.A.3
Kalkhof, S.4
Von Bergen, M.5
Hofacker, I.L.6
Stadler, P.F.7
Goldman, N.8
-
17
-
-
0024212067
-
Rapid production of full-length cDNAs from rare transcripts: Amplification using a single gene-specific oligonucleotide primer
-
Frohman, M. A., Dush, M. K. and Martin, G. R. (1988) Rapid production of full-length cDNAs from rare transcripts: amplification using a single gene-specific oligonucleotide primer. Proc. Natl. Acad. Sci. U. S. A., 85, 8998-9002.
-
(1988)
Proc. Natl. Acad. Sci. U. S. A.
, vol.85
, pp. 8998-9002
-
-
Frohman, M.A.1
Dush, M.K.2
Martin, G.R.3
-
18
-
-
84956691878
-
CAGE profling of ncRNAs in hepatocellular carcinoma reveals widespread activation of retroviral LTR promoters in virus-induced tumors
-
Hashimoto, K., Suzuki, A. M., Dos Santos, A., Desterke, C., Collino, A., Ghisletti, S., Braun, E., Bonetti, A., Fort, A., Qin, X. Y. et al. (2015) CAGE profling of ncRNAs in hepatocellular carcinoma reveals widespread activation of retroviral LTR promoters in virus-induced tumors. Genome Res., 25, 1812-1824.
-
(2015)
Genome Res.
, vol.25
, pp. 1812-1824
-
-
Hashimoto, K.1
Suzuki, A.M.2
Dos Santos, A.3
Desterke, C.4
Collino, A.5
Ghisletti, S.6
Braun, E.7
Bonetti, A.8
Fort, A.9
Qin, X.Y.10
-
19
-
-
9144233601
-
Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage
-
Shiraki, T., Kondo, S., Katayama, S., Waki, K., Kasukawa, T., Kawaji, H., Kodzius, R., Watahiki, A., Nakamura, M., Arakawa, T. et al. (2003) Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage. Proc. Natl. Acad. Sci. U. S. A., 100, 15776-15781.
-
(2003)
Proc. Natl. Acad. Sci. U. S. A.
, vol.100
, pp. 15776-15781
-
-
Shiraki, T.1
Kondo, S.2
Katayama, S.3
Waki, K.4
Kasukawa, T.5
Kawaji, H.6
Kodzius, R.7
Watahiki, A.8
Nakamura, M.9
Arakawa, T.10
-
20
-
-
79551575924
-
Prediction and characterization of noncoding RNAs in C. Elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data
-
Lu, Z. J., Yip, K. Y., Wang, G., Shou, C., Hillier, L. W., Khurana, E., Agarwal, A., Auerbach, R., Rozowsky, J., Cheng, C. et al. (2011) Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data. Genome Res., 21, 276-285.
-
(2011)
Genome Res.
, vol.21
, pp. 276-285
-
-
Lu, Z.J.1
Yip, K.Y.2
Wang, G.3
Shou, C.4
Hillier, L.W.5
Khurana, E.6
Agarwal, A.7
Auerbach, R.8
Rozowsky, J.9
Cheng, C.10
-
21
-
-
84890415138
-
Long non-coding RNA identification over mouse brain development by integrative modeling of chromatin and genomic features
-
Lv, J., Liu, H., Huang, Z., Su, J., He, H., Xiu, Y., Zhang, Y. and Wu, Q. (2013) Long non-coding RNA identification over mouse brain development by integrative modeling of chromatin and genomic features. Nucleic Acids Res., 41, 10044-10061.
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. 10044-10061
-
-
Lv, J.1
Liu, H.2
Huang, Z.3
Su, J.4
He, H.5
Xiu, Y.6
Zhang, Y.7
Wu, Q.8
-
22
-
-
84877575447
-
Integration of genome-wide approaches identifies lncRNAs of adult neural stem cells and their progeny in vivo
-
Ramos, A. D., Diaz, A., Nellore, A., Delgado, R. N., Park, K. Y., Gonzales-Roybal, G., Oldham, M. C., Song, J. S. and Lim, D. A. (2013) Integration of genome-wide approaches identifies lncRNAs of adult neural stem cells and their progeny in vivo. Cell Stem Cell, 12, 616-628.
-
(2013)
Cell Stem Cell
, vol.12
, pp. 616-628
-
-
Ramos, A.D.1
Diaz, A.2
Nellore, A.3
Delgado, R.N.4
Park, K.Y.5
Gonzales-Roybal, G.6
Oldham, M.C.7
Song, J.S.8
Lim, D.A.9
-
23
-
-
78650410139
-
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project
-
Gerstein, M. B., Lu, Z. J., Van Nostrand, E. L., Cheng, C., Arshinoff, B. I., Liu, T., Yip, K. Y., Robilotto, R., Rechtsteiner, A., Ikegami, K. et al. (2010) Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Science, 330, 1775-1787.
-
(2010)
Science
, vol.330
, pp. 1775-1787
-
-
Gerstein, M.B.1
Lu, Z.J.2
Van Nostrand, E.L.3
Cheng, C.4
Arshinoff, B.I.5
Liu, T.6
Yip, K.Y.7
Robilotto, R.8
Rechtsteiner, A.9
Ikegami, K.10
-
24
-
-
79551575924
-
Prediction and characterization of noncoding RNAs in C. Elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data
-
Lu, Z. J., Yip, K. Y., Wang, G., Shou, C., Hillier, L. W., Khurana, E., Agarwal, A., Auerbach, R., Rozowsky, J., Cheng, C. et al. (2011) Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data. Genome Res., 21, 276-285.
-
(2011)
Genome Res.
, vol.21
, pp. 276-285
-
-
Lu, Z.J.1
Yip, K.Y.2
Wang, G.3
Shou, C.4
Hillier, L.W.5
Khurana, E.6
Agarwal, A.7
Auerbach, R.8
Rozowsky, J.9
Cheng, C.10
-
25
-
-
80052978224
-
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
-
Cabili, M. N., Trapnell, C., Goff, L., Koziol, M., Tazon-Vega, B., Regev, A. and Rinn, J. L. (2011) Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev., 25, 1915-1927.
-
(2011)
Genes Dev.
, vol.25
, pp. 1915-1927
-
-
Cabili, M.N.1
Trapnell, C.2
Goff, L.3
Koziol, M.4
Tazon-Vega, B.5
Regev, A.6
Rinn, J.L.7
-
26
-
-
84879969127
-
Ribosome profling provides evidence that large noncoding RNAs do not encode proteins
-
Guttman, M., Russell, P., Ingolia, N. T., Weissman, J. S. and Lander, E. S. (2013) Ribosome profling provides evidence that large noncoding RNAs do not encode proteins. Cell, 154, 240-251.
-
(2013)
Cell
, vol.154
, pp. 240-251
-
-
Guttman, M.1
Russell, P.2
Ingolia, N.T.3
Weissman, J.S.4
Lander, E.S.5
-
27
-
-
84944441845
-
A common set of distinct features that characterize noncoding RNAs across multiple species
-
Hu, L., Di, C., Kai, M., Yang, Y. C., Li, Y., Qiu, Y., Hu, X., Yip, K. Y., Zhang, M. Q. and Lu, Z. J. (2015) A common set of distinct features that characterize noncoding RNAs across multiple species. Nucleic Acids Res., 43, 104-114.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. 104-114
-
-
Hu, L.1
Di, C.2
Kai, M.3
Yang, Y.C.4
Li, Y.5
Qiu, Y.6
Hu, X.7
Yip, K.Y.8
Zhang, M.Q.9
Lu, Z.J.10
-
28
-
-
34547624303
-
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
-
Mikkelsen, T. S., Ku, M., Jaffe, D. B., Issac, B., Lieberman, E., Giannoukos, G., Alvarez, P., Brockman, W., Kim, T. K., Koche, R. P. et al. (2007) Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature, 448, 553-560.
-
(2007)
Nature
, vol.448
, pp. 553-560
-
-
Mikkelsen, T.S.1
Ku, M.2
Jaffe, D.B.3
Issac, B.4
Lieberman, E.5
Giannoukos, G.6
Alvarez, P.7
Brockman, W.8
Kim, T.K.9
Koche, R.P.10
-
29
-
-
84881171276
-
Inferring chromatin-bound protein complexes from genome-wide binding assays
-
Giannopoulou, E. G. and Elemento, O. (2013) Inferring chromatin-bound protein complexes from genome-wide binding assays. Genome Res., 23, 1295-1306.
-
(2013)
Genome Res.
, vol.23
, pp. 1295-1306
-
-
Giannopoulou, E.G.1
Elemento, O.2
-
30
-
-
33846057724
-
NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
-
Pruitt, K. D., Tatusova, T. and Maglott, D. R. (2007) NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res., 35, D61-D65.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. D61-D65
-
-
Pruitt, K.D.1
Tatusova, T.2
Maglott, D.R.3
-
31
-
-
62549134121
-
Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profling
-
Ingolia, N. T., Ghaemmaghami, S., Newman, J. R. and Weissman, J. S. (2009) Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profling. Science, 324, 218-223.
-
(2009)
Science
, vol.324
, pp. 218-223
-
-
Ingolia, N.T.1
Ghaemmaghami, S.2
Newman, J.R.3
Weissman, J.S.4
-
32
-
-
84896405670
-
Comparative ribosome profling reveals extensive translational complexity in different Trypanosoma brucei life cycle stages
-
Vasquez, J. J., Hon, C. C., Vanselow, J. T., Schlosser, A. and Siegel, T. N. (2014) Comparative ribosome profling reveals extensive translational complexity in different Trypanosoma brucei life cycle stages. Nucleic Acids Res., 42, 3623-3637.
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 3623-3637
-
-
Vasquez, J.J.1
Hon, C.C.2
Vanselow, J.T.3
Schlosser, A.4
Siegel, T.N.5
-
33
-
-
84899884309
-
Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation
-
Bazzini, A. A., Johnstone, T. G., Christiano, R., Mackowiak, S. D., Obermayer, B., Fleming, E. S., Vejnar, C. E., Lee, M. T., Rajewsky, N., Walther, T. C. et al. (2014) Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. EMBO J., 33, 981-993.
-
(2014)
EMBO J.
, vol.33
, pp. 981-993
-
-
Bazzini, A.A.1
Johnstone, T.G.2
Christiano, R.3
Mackowiak, S.D.4
Obermayer, B.5
Fleming, E.S.6
Vejnar, C.E.7
Lee, M.T.8
Rajewsky, N.9
Walther, T.C.10
-
34
-
-
84961378914
-
Detecting actively translated open reading frames in ribosome profling data
-
Calviello, L., Mukherjee, N., Wyler, E., Zauber, H., Hirsekorn, A., Selbach, M., Landthaler, M., Obermayer, B. and Ohler, U. (2016) Detecting actively translated open reading frames in ribosome profling data. Nat. Methods, 13, 165-170.
-
(2016)
Nat. Methods
, vol.13
, pp. 165-170
-
-
Calviello, L.1
Mukherjee, N.2
Wyler, E.3
Zauber, H.4
Hirsekorn, A.5
Selbach, M.6
Landthaler, M.7
Obermayer, B.8
Ohler, U.9
-
35
-
-
84865757142
-
Landscape of transcription in human cells
-
Djebali, S., Davis, C. A., Merkel, A., Dobin, A., Lassmann, T., Mortazavi, A., Tanzer, A., Lagarde, J., Lin, W., Schlesinger, F. et al. (2012) Landscape of transcription in human cells. Nature, 489, 101-108.
-
(2012)
Nature
, vol.489
, pp. 101-108
-
-
Djebali, S.1
Davis, C.A.2
Merkel, A.3
Dobin, A.4
Lassmann, T.5
Mortazavi, A.6
Tanzer, A.7
Lagarde, J.8
Lin, W.9
Schlesinger, F.10
-
36
-
-
84895908120
-
The evolution of lncRNA repertoires and expression patterns in tetrapods
-
Necsulea, A., Soumillon, M., Warnefors, M., Liechti, A., Daish, T., Zeller, U., Baker, J. C., Grutzner, F. and Kaessmann, H. (2014) The evolution of lncRNA repertoires and expression patterns in tetrapods. Nature, 505, 635-640.
-
(2014)
Nature
, vol.505
, pp. 635-640
-
-
Necsulea, A.1
Soumillon, M.2
Warnefors, M.3
Liechti, A.4
Daish, T.5
Zeller, U.6
Baker, J.C.7
Grutzner, F.8
Kaessmann, H.9
-
37
-
-
79959931985
-
HMMER web server: Interactive sequence similarity searching
-
Finn, R. D., Clements, J. and Eddy, S. R. (2011) HMMER web server: interactive sequence similarity searching. Nucleic Acids Res., 39, W29-W37.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. W29-W37
-
-
Finn, R.D.1
Clements, J.2
Eddy, S.R.3
-
38
-
-
84946013175
-
LncRNAdb v2.0: Expanding the reference database for functional long noncoding RNAs
-
Quek, X. C., Thomson, D. W., Maag, J. L., Bartonicek, N., Signal, B., Clark, M. B., Gloss, B. S. and Dinger, M. E. (2015) lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAs. Nucleic Acids Res., 43, D168-D173.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. D168-D173
-
-
Quek, X.C.1
Thomson, D.W.2
Maag, J.L.3
Bartonicek, N.4
Signal, B.5
Clark, M.B.6
Gloss, B.S.7
Dinger, M.E.8
-
39
-
-
84961683881
-
Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)
-
Van Nostrand, E. L., Pratt, G. A., Shishkin, A. A., Gelboin-Burkhart, C., Fang, M. Y., Sundararaman, B., Blue, S. M., Nguyen, T. B., Surka, C., Elkins, K. et al. (2016) Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP). Nat. Methods, 13, 508-514.
-
(2016)
Nat. Methods
, vol.13
, pp. 508-514
-
-
Van Nostrand, E.L.1
Pratt, G.A.2
Shishkin, A.A.3
Gelboin-Burkhart, C.4
Fang, M.Y.5
Sundararaman, B.6
Blue, S.M.7
Nguyen, T.B.8
Surka, C.9
Elkins, K.10
-
40
-
-
84890037468
-
Infernal 1.1:100-fold faster RNA homology searches
-
Nawrocki, E. P. and Eddy, S. R. (2013) Infernal 1.1:100-fold faster RNA homology searches. Bioinformatics, 29, 2933-2935.
-
(2013)
Bioinformatics
, vol.29
, pp. 2933-2935
-
-
Nawrocki, E.P.1
Eddy, S.R.2
-
41
-
-
84922277120
-
A census of human RNA-binding proteins
-
Gerstberger, S., Hafiner, M. and Tuschl, T. (2014) A census of human RNA-binding proteins. Nat. Rev. Genet., 15, 829-845.
-
(2014)
Nat. Rev. Genet.
, vol.15
, pp. 829-845
-
-
Gerstberger, S.1
Hafiner, M.2
Tuschl, T.3
-
42
-
-
0030762226
-
A transcript map for the 2.8-Mb region containing the multiple endocrine neoplasia type 1 locus
-
Guru, S. C., Agarwal, S. K., Manickam, P., Olufemi, S. E., Crabtree, J. S., Weisemann, J. M., Kester, M. B., Kim, Y. S., Wang, Y., Emmert-Buck, M. R. et al. (1997) A transcript map for the 2.8-Mb region containing the multiple endocrine neoplasia type 1 locus. Genome Res., 7, 725-735.
-
(1997)
Genome Res.
, vol.7
, pp. 725-735
-
-
Guru, S.C.1
Agarwal, S.K.2
Manickam, P.3
Olufemi, S.E.4
Crabtree, J.S.5
Weisemann, J.M.6
Kester, M.B.7
Kim, Y.S.8
Wang, Y.9
Emmert-Buck, M.R.10
-
43
-
-
33847185603
-
A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains
-
Hutchinson, J. N., Ensminger, A. W., Clemson, C. M., Lynch, C. R., Lawrence, J. B. and Chess, A. (2007) A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains. BMC Genomics, 8, 39-54.
-
(2007)
BMC Genomics
, vol.8
, pp. 39-54
-
-
Hutchinson, J.N.1
Ensminger, A.W.2
Clemson, C.M.3
Lynch, C.R.4
Lawrence, J.B.5
Chess, A.6
-
44
-
-
61849113891
-
MEN epsilon/beta nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles
-
Sunwoo, H., Dinger, M. E., Wilusz, J. E., Amaral, P. P., Mattick, J. S. and Spector, D. L. (2009) MEN epsilon/beta nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles. Genome Res., 19, 347-359.
-
(2009)
Genome Res.
, vol.19
, pp. 347-359
-
-
Sunwoo, H.1
Dinger, M.E.2
Wilusz, J.E.3
Amaral, P.P.4
Mattick, J.S.5
Spector, D.L.6
-
45
-
-
84882837534
-
Signatures of mutational processes in human cancer
-
Alexandrov, L. B., Nik-Zainal, S., Wedge, D. C., Aparicio, S. A., Behjati, S., Biankin, A. V., Bignell, G. R., Bolli, N., Borg, A., Borresen-Dale, A. L. et al. (2013) Signatures of mutational processes in human cancer. Nature, 500, 415-421.
-
(2013)
Nature
, vol.500
, pp. 415-421
-
-
Alexandrov, L.B.1
Nik-Zainal, S.2
Wedge, D.C.3
Aparicio, S.A.4
Behjati, S.5
Biankin, A.V.6
Bignell, G.R.7
Bolli, N.8
Borg, A.9
Borresen-Dale, A.L.10
-
46
-
-
84922708088
-
A micropeptide encoded by a putative long noncoding RNA regulates muscle performance
-
Anderson, D. M., Anderson, K. M., Chang, C. L., Makarewich, C. A., Nelson, B. R., McAnally, J. R., Kasaragod, P., Shelton, J. M., Liou, J., Bassel-Duby, R. et al. (2015) A micropeptide encoded by a putative long noncoding RNA regulates muscle performance. Cell, 160, 595-606.
-
(2015)
Cell
, vol.160
, pp. 595-606
-
-
Anderson, D.M.1
Anderson, K.M.2
Chang, C.L.3
Makarewich, C.A.4
Nelson, B.R.5
McAnally, J.R.6
Kasaragod, P.7
Shelton, J.M.8
Liou, J.9
Bassel-Duby, R.10
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