-
1
-
-
33846045953
-
Principles of microRNA regulation of a human cellular signaling network
-
Cui Q, Yu Z, Purisima E, Wang E. Principles of microRNA regulation of a human cellular signaling network. Mol Syst Biol 2006, 46(2).
-
(2006)
Mol Syst Biol
, vol.46
, Issue.2
-
-
Cui, Q.1
Yu, Z.2
Purisima, E.3
Wang, E.4
-
2
-
-
40349094597
-
MicroRNA-373 induces expression of genes with complementary promoter sequences
-
10.1073/pnas.0707594105, 2234192, 18227514
-
Place R, Li L, Pookot D, Noonan E, Dahiya R. MicroRNA-373 induces expression of genes with complementary promoter sequences. Proc Natl Acad Sci USA 2008, 105(5):1608-13. 10.1073/pnas.0707594105, 2234192, 18227514.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, Issue.5
, pp. 1608-1613
-
-
Place, R.1
Li, L.2
Pookot, D.3
Noonan, E.4
Dahiya, R.5
-
3
-
-
34249294856
-
Energizing miRNA research: A review of the role of miRNAs in lipid metabolism, with a prediction that miR-103/107 regulates human metabolic pathways
-
Wilfred Bernard R, Wang-Xia W, Nelson PT. Energizing miRNA research: A review of the role of miRNAs in lipid metabolism, with a prediction that miR-103/107 regulates human metabolic pathways. Mol Genet Metab 2007,
-
(2007)
Mol Genet Metab
-
-
Wilfred Bernard, R.1
Wang-Xia, W.2
Nelson, P.T.3
-
4
-
-
78650698942
-
Ontology-Driven Co-clustering of Gene Expression Data
-
LNCS
-
Cordero F, Pensa RG, Visconti A, Ienco D, Botta M. Ontology-Driven Co-clustering of Gene Expression Data. Proc of AI*IA 2009 2009, 426-435. LNCS.
-
(2009)
Proc of AI*IA 2009
, pp. 426-435
-
-
Cordero, F.1
Pensa, R.G.2
Visconti, A.3
Ienco, D.4
Botta, M.5
-
6
-
-
27544458484
-
Prediction of regulatory modules comprising microRNAs and target genes
-
Yoon S, De Micheli G. Prediction of regulatory modules comprising microRNAs and target genes. Bioinformatics 2005, 21(2):93-100.
-
(2005)
Bioinformatics
, vol.21
, Issue.2
, pp. 93-100
-
-
Yoon, S.1
De Micheli, G.2
-
7
-
-
33646137384
-
A systematic comparison and evaluation of biclustering methods for gene expression data
-
10.1093/bioinformatics/btl060, 16500941
-
Prelic A, Bleuler S, Zimmermann P, Wille A, Bühlmann P, Gruissem W, Hennig L, Thiele L, Zitzler E. A systematic comparison and evaluation of biclustering methods for gene expression data. Bioinformatics 2006, 22(9):1122-1129. 10.1093/bioinformatics/btl060, 16500941.
-
(2006)
Bioinformatics
, vol.22
, Issue.9
, pp. 1122-1129
-
-
Prelic, A.1
Bleuler, S.2
Zimmermann, P.3
Wille, A.4
Bühlmann, P.5
Gruissem, W.6
Hennig, L.7
Thiele, L.8
Zitzler, E.9
-
8
-
-
0034566393
-
Biclustering of Expression Data
-
29837, 11125091
-
Cheng Y, Church GM. Biclustering of Expression Data. Proc of ISMB'00 2000, 93-103. 29837, 11125091.
-
(2000)
Proc of ISMB'00
, pp. 93-103
-
-
Cheng, Y.1
Church, G.M.2
-
9
-
-
84869072363
-
A scalable framework for discovering coherent co-clusters in noisy data
-
2943854, 20871805
-
Deodhar M, Gupta G, Ghosh J, Cho H, Dhillon IS. A scalable framework for discovering coherent co-clusters in noisy data. Proc of ICML'09 2009, 31. 2943854, 20871805.
-
(2009)
Proc of ICML'09
, pp. 31
-
-
Deodhar, M.1
Gupta, G.2
Ghosh, J.3
Cho, H.4
Dhillon, I.S.5
-
10
-
-
79959448071
-
A novel computational framework for simultaneous integration of multiple types of genomic data to identify microRNA-gene regulatory modules
-
Zhang SH, Li Q, Liu J, Zhou XJ. A novel computational framework for simultaneous integration of multiple types of genomic data to identify microRNA-gene regulatory modules. Bioinformatics [ISMB/ECCB] 2011, 27(13):401-409.
-
(2011)
Bioinformatics [ISMB/ECCB]
, vol.27
, Issue.13
, pp. 401-409
-
-
Zhang, S.H.1
Li, Q.2
Liu, J.3
Zhou, X.J.4
-
11
-
-
79952146521
-
NAViGaTing the Micronome - Using Multiple MicroRNA Prediction Databases to Identify Signalling Pathway-Associated MicroRNAs
-
10.1371/journal.pone.0017429, 3045450, 21364759
-
Shirdel EA, Xie W, Mak TW, Jurisica I. NAViGaTing the Micronome - Using Multiple MicroRNA Prediction Databases to Identify Signalling Pathway-Associated MicroRNAs. PLoS ONE 2011, 6(2):e17429. 10.1371/journal.pone.0017429, 3045450, 21364759.
-
(2011)
PLoS ONE
, vol.6
, Issue.2
-
-
Shirdel, E.A.1
Xie, W.2
Mak, T.W.3
Jurisica, I.4
-
12
-
-
78651266827
-
MiRTarBase: a database curates experimentally validated microRNA-target interactions
-
Hsu SD, Lin FM, Wu WY, Liang C, Chan WL, Tsai WT, Chen GZ, Lee CJ, Chiu CM, Chien CH, Wu MC, Huang CY, Tsou AP, Huang HD. miRTarBase: a database curates experimentally validated microRNA-target interactions. Nucleic Acids Research 2011, 163-169.
-
(2011)
Nucleic Acids Research
, pp. 163-169
-
-
Hsu, S.D.1
Lin, F.M.2
Wu, W.Y.3
Liang, C.4
Chan, W.L.5
Tsai, W.T.6
Chen, G.Z.7
Lee, C.J.8
Chiu, C.M.9
Chien, C.H.10
Wu, M.C.11
Huang, C.Y.12
Tsou, A.P.13
Huang, H.D.14
-
13
-
-
0034069495
-
Gene Ontology: tool for the unification of biology. The Gene Ontology Consortium
-
10.1038/75556, 3037419, 10802651
-
Ashburner M, et al. Gene Ontology: tool for the unification of biology. The Gene Ontology Consortium. Nature Genetics 2000, 25:25-29. 10.1038/75556, 3037419, 10802651.
-
(2000)
Nature Genetics
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
-
14
-
-
33746228056
-
An Improved Biclustering Method for Analyzing Gene Expression Profiles
-
Yang J, Wang H, Wang W, Yu PS. An Improved Biclustering Method for Analyzing Gene Expression Profiles. International Journal on Artificial Intelligence Tools 2005, 14(5):771-790.
-
(2005)
International Journal on Artificial Intelligence Tools
, vol.14
, Issue.5
, pp. 771-790
-
-
Yang, J.1
Wang, H.2
Wang, W.3
Yu, P.S.4
-
15
-
-
0036375743
-
Discovering local structure in gene expression data: the order-preserving submatrix problem
-
2692033, 15531607
-
Ben-Dor A, Chor B, Karp R, Yakhini Z. Discovering local structure in gene expression data: the order-preserving submatrix problem. Proc of RECOMB '02 2002, 49-57. 2692033, 15531607.
-
(2002)
Proc of RECOMB '02
, pp. 49-57
-
-
Ben-Dor, A.1
Chor, B.2
Karp, R.3
Yakhini, Z.4
-
16
-
-
84878771068
-
Hierarchical and Overlapping Co-Clustering of mRNA: miRNA Interactions
-
IOS Press
-
Pio G, Ceci M, Loglisci C, D'Elia D, Malerba D. Hierarchical and Overlapping Co-Clustering of mRNA: miRNA Interactions. ECAI, Volume 242 of Frontiers in Artificial Intelligence and Applications 2012, 654-659. IOS Press., http://ebooks.iospress.nl/publication/7048
-
(2012)
ECAI, Volume 242 of Frontiers in Artificial Intelligence and Applications
, pp. 654-659
-
-
Pio, G.1
Ceci, M.2
Loglisci, C.3
D'Elia, D.4
Malerba, D.5
-
17
-
-
69549124090
-
Computational identification of hepatitis C virus associated microRNA-mRNA regulatory modules in human livers
-
10.1186/1471-2164-10-373, 2907698, 19671175
-
Peng X, Li Y, Walters KA, Rosenzweig E, Lederer S, Aicher L, Proll S, Katze M. Computational identification of hepatitis C virus associated microRNA-mRNA regulatory modules in human livers. BMC Genomics 2009, 10:373. 10.1186/1471-2164-10-373, 2907698, 19671175.
-
(2009)
BMC Genomics
, vol.10
, pp. 373
-
-
Peng, X.1
Li, Y.2
Walters, K.A.3
Rosenzweig, E.4
Lederer, S.5
Aicher, L.6
Proll, S.7
Katze, M.8
-
18
-
-
34548339681
-
MicroRNA regulation of human protein protein interaction network
-
Liang H, Li W. MicroRNA regulation of human protein protein interaction network. RNA 2006, 13:1402-1408.
-
(2006)
RNA
, vol.13
, pp. 1402-1408
-
-
Liang, H.1
Li, W.2
-
19
-
-
44649167011
-
Characterization of microRNA-regulated protein-protein interaction network
-
10.1002/pmic.200701004, 18491312
-
Hsu CW, Juan HF, Huang HC. Characterization of microRNA-regulated protein-protein interaction network. PROTEOMICS 2008, 8(10):1975-1979. 10.1002/pmic.200701004, 18491312.
-
(2008)
PROTEOMICS
, vol.8
, Issue.10
, pp. 1975-1979
-
-
Hsu, C.W.1
Juan, H.F.2
Huang, H.C.3
-
20
-
-
37349050789
-
Computational analysis of biological functions and pathways collectively targeted by co-expressed microRNAs in cancer
-
Gusev Y, Schmittgen TD, Lerner M, Postier R, Brackett D. Computational analysis of biological functions and pathways collectively targeted by co-expressed microRNAs in cancer. BMC Bioinformatics 2007, 8(S-7).
-
(2007)
BMC Bioinformatics
, vol.8
, Issue.7 S
-
-
Gusev, Y.1
Schmittgen, T.D.2
Lerner, M.3
Postier, R.4
Brackett, D.5
-
21
-
-
45749124784
-
A computational screen for mouse signaling pathways targeted by microRNA clusters
-
10.1261/rna.997708, 2441985, 18511500
-
Xu J, Wong C. A computational screen for mouse signaling pathways targeted by microRNA clusters. RNA 2008, 14:1276-1283. 10.1261/rna.997708, 2441985, 18511500.
-
(2008)
RNA
, vol.14
, pp. 1276-1283
-
-
Xu, J.1
Wong, C.2
-
22
-
-
34547555796
-
Global and Local Architecture of the Mammalian microRNA-Transcription Factor Regulatory Network
-
10.1371/journal.pcbi.0030131, 1914371, 17630826
-
Shalgi R, Lieber D, Oren M, Pilpel Y. Global and Local Architecture of the Mammalian microRNA-Transcription Factor Regulatory Network. PLoS Comput Biol 2007, 3(7):e131. 10.1371/journal.pcbi.0030131, 1914371, 17630826.
-
(2007)
PLoS Comput Biol
, vol.3
, Issue.7
-
-
Shalgi, R.1
Lieber, D.2
Oren, M.3
Pilpel, Y.4
-
23
-
-
38349138548
-
Inter- and intra-combinatorial regulation by transcription factors and microRNAs
-
10.1186/1471-2164-8-396, 2206040, 17971223
-
Zhou Y, Ferguson J, Chang JT, Kluger Y. Inter- and intra-combinatorial regulation by transcription factors and microRNAs. BMC genomics 2007, 8:396. 10.1186/1471-2164-8-396, 2206040, 17971223.
-
(2007)
BMC genomics
, vol.8
, pp. 396
-
-
Zhou, Y.1
Ferguson, J.2
Chang, J.T.3
Kluger, Y.4
-
24
-
-
68349092641
-
Clustered microRNAs' coordination in regulating protein-protein interaction network
-
10.1186/1752-0509-3-65, 2714305, 19558649
-
Yuan X, Liu C, Yang P, He S, Liao Q, Kang S, Zhao Y. Clustered microRNAs' coordination in regulating protein-protein interaction network. BMC Systems Biology 2009, 3:65. 10.1186/1752-0509-3-65, 2714305, 19558649.
-
(2009)
BMC Systems Biology
, vol.3
, pp. 65
-
-
Yuan, X.1
Liu, C.2
Yang, P.3
He, S.4
Liao, Q.5
Kang, S.6
Zhao, Y.7
-
25
-
-
33846002373
-
Modularity and Dynamics of Cellular Networks
-
10.1371/journal.pcbi.0020174, 1761653, 17196032
-
Qi Y, Ge H. Modularity and Dynamics of Cellular Networks. PLoS Comput Biol 2006, 2(12):e174. 10.1371/journal.pcbi.0020174, 1761653, 17196032.
-
(2006)
PLoS Comput Biol
, vol.2
, Issue.12
-
-
Qi, Y.1
Ge, H.2
-
27
-
-
0032131147
-
A Fast and High Quality Multilevel Scheme for Partitioning Irregular Graphs
-
Karypis G, Kumar V. A Fast and High Quality Multilevel Scheme for Partitioning Irregular Graphs. SIAM J Sci Comput 1998, 20:359-392.
-
(1998)
SIAM J Sci Comput
, vol.20
, pp. 359-392
-
-
Karypis, G.1
Kumar, V.2
-
28
-
-
85170282443
-
A Density-Based Algorithm for Discovering Clusters in Large Spatial Databases with Noise
-
Ester M, Kriegel HP, Sander J, Xu X. A Density-Based Algorithm for Discovering Clusters in Large Spatial Databases with Noise. KDD 1996, 226-231.
-
(1996)
KDD
, pp. 226-231
-
-
Ester, M.1
Kriegel, H.P.2
Sander, J.3
Xu, X.4
-
29
-
-
38549120729
-
MiRNAMap 2.0: genomic maps of microRNAs in metazoan genomes
-
2238982, 18029362
-
Hsu SD, Chu CH, Tsou AP, Chen SJ, Chen HC, Hsu PW, Wong YH, Chen YH, Chen GH, Huang HD. miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes. Nucleic Acids Res 2008, 36:D165-D169. 2238982, 18029362.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Hsu, S.D.1
Chu, C.H.2
Tsou, A.P.3
Chen, S.J.4
Chen, H.C.5
Hsu, P.W.6
Wong, Y.H.7
Chen, Y.H.8
Chen, G.H.9
Huang, H.D.10
-
30
-
-
0001089823
-
Support Vector Clustering
-
Ben-Hur A, Horn D, Siegelmann HT, Vapnik V. Support Vector Clustering. Journal of Machine Learning Research 2001, 2:125-137.
-
(2001)
Journal of Machine Learning Research
, vol.2
, pp. 125-137
-
-
Ben-Hur, A.1
Horn, D.2
Siegelmann, H.T.3
Vapnik, V.4
-
31
-
-
0242456822
-
Optimizing search engines using clickthrough data
-
Joachims T. Optimizing search engines using clickthrough data. Proc of SIGKDD 02 2002, 133-142.
-
(2002)
Proc of SIGKDD 02
, pp. 133-142
-
-
Joachims, T.1
-
33
-
-
47149083877
-
Metrics for GO based protein semantic similarity: a systematic evaluation
-
Pesquita C, Faria D, Bastos HP, Ferreira AEN, Falcão AO, Couto FM. Metrics for GO based protein semantic similarity: a systematic evaluation. BMC Bioinformatics 2008, 9(S-5).
-
(2008)
BMC Bioinformatics
, vol.9
, Issue.5 S
-
-
Pesquita, C.1
Faria, D.2
Bastos, H.P.3
Ferreira, A.E.N.4
Falcão, A.O.5
Couto, F.M.6
-
34
-
-
34248172904
-
Measures of semantic similarity and relatedness in the biomedical domain
-
Pedersen T, Pakhomov SVS, Patwardhan S, Chute CG. Measures of semantic similarity and relatedness in the biomedical domain. J of Biomedical Informatics 2007, 40(3):288-299.
-
(2007)
J of Biomedical Informatics
, vol.40
, Issue.3
, pp. 288-299
-
-
Pedersen, T.1
Pakhomov, S.V.S.2
Patwardhan, S.3
Chute, C.G.4
-
35
-
-
85101445097
-
-
Wiley series in probability and mathematical statistics, New York [u.a.]: Wiley
-
Draper N, Smith H. Applied regression analysis 1966, Wiley series in probability and mathematical statistics, New York [u.a.]: Wiley.
-
(1966)
Applied regression analysis
-
-
Draper, N.1
Smith, H.2
-
36
-
-
20444467290
-
A microRNA polycistron as a potential human oncogene
-
10.1038/nature03552, 15944707
-
He L, Thomson JM, Hemann MT, Hernando-Monge E, Mu D, Goodson S, Powers S, Cordon-Cardo C, Lowe SW, Hannon GJ, Hammond SM. A microRNA polycistron as a potential human oncogene. Nature 2005, 435(7043):828-833. 10.1038/nature03552, 15944707.
-
(2005)
Nature
, vol.435
, Issue.7043
, pp. 828-833
-
-
He, L.1
Thomson, J.M.2
Hemann, M.T.3
Hernando-Monge, E.4
Mu, D.5
Goodson, S.6
Powers, S.7
Cordon-Cardo, C.8
Lowe, S.W.9
Hannon, G.J.10
Hammond, S.M.11
-
37
-
-
80052436419
-
Reactome pathway analysis to enrich biological discovery in proteomics data sets
-
10.1002/pmic.201100066, 21751369
-
Haw R, Hermjakob H, D'Eustachio P, Stein L. Reactome pathway analysis to enrich biological discovery in proteomics data sets. Proteomics 2011, 11(18):3598-3613. 10.1002/pmic.201100066, 21751369.
-
(2011)
Proteomics
, vol.11
, Issue.18
, pp. 3598-3613
-
-
Haw, R.1
Hermjakob, H.2
D'Eustachio, P.3
Stein, L.4
-
38
-
-
84860615255
-
In-silico human genomics with GeneCards
-
10.1186/1479-7364-5-6-709, 3525253, 22155609
-
Stelzer G, Dalah I, Stein T, Satanower Y, Rosen N, Nativ N, Oz-Levi D, Olender T, Belinky F, Bahir I, Krug H, Perco P, Mayer B, Kolker E, Safran M, Lancet D. In-silico human genomics with GeneCards. Hum Genomics 2011, 5(6):709-17. 10.1186/1479-7364-5-6-709, 3525253, 22155609.
-
(2011)
Hum Genomics
, vol.5
, Issue.6
, pp. 709-717
-
-
Stelzer, G.1
Dalah, I.2
Stein, T.3
Satanower, Y.4
Rosen, N.5
Nativ, N.6
Oz-Levi, D.7
Olender, T.8
Belinky, F.9
Bahir, I.10
Krug, H.11
Perco, P.12
Mayer, B.13
Kolker, E.14
Safran, M.15
Lancet, D.16
-
39
-
-
77954382780
-
Mir-17-92, a cluster of miRNAs in the midst of the cancer network
-
10.1016/j.biocel.2010.03.004, 3681296, 20227518
-
Olive V, Jiang I, He L. mir-17-92, a cluster of miRNAs in the midst of the cancer network. Int J Biochem Cell Biol 2010, 42(8):1348-54. 10.1016/j.biocel.2010.03.004, 3681296, 20227518.
-
(2010)
Int J Biochem Cell Biol
, vol.42
, Issue.8
, pp. 1348-1354
-
-
Olive, V.1
Jiang, I.2
He, L.3
-
40
-
-
54249158400
-
Emerging role of miR-106b-25/miR-17-92 clusters in the control of transforming growth factor beta signaling
-
10.1158/0008-5472.CAN-08-1768, 18922889
-
Petrocca F, Vecchione A, Croce CM. Emerging role of miR-106b-25/miR-17-92 clusters in the control of transforming growth factor beta signaling. Cancer research 2008, 68(20):8191-8194. 10.1158/0008-5472.CAN-08-1768, 18922889.
-
(2008)
Cancer research
, vol.68
, Issue.20
, pp. 8191-8194
-
-
Petrocca, F.1
Vecchione, A.2
Croce, C.M.3
-
41
-
-
51349093465
-
MicroRNAs regulate critical genes associated with multiple myeloma pathogenesis
-
10.1073/pnas.0806202105, 2529070, 18728182
-
Pichiorri F, Suh SS, Ladetto M, Kuehl M, Palumbo T, Drandi D, Taccioli C, Zanesi N, Alder H, Hagan JP, Munker R, Volinia S, Boccadoro M, Garzon R, Palumbo A, Aqeilan RI, Croce CM. MicroRNAs regulate critical genes associated with multiple myeloma pathogenesis. Proc Natl Acad Sci USA 2008, 105(35):12885-90. 10.1073/pnas.0806202105, 2529070, 18728182.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, Issue.35
, pp. 12885-12890
-
-
Pichiorri, F.1
Suh, S.S.2
Ladetto, M.3
Kuehl, M.4
Palumbo, T.5
Drandi, D.6
Taccioli, C.7
Zanesi, N.8
Alder, H.9
Hagan, J.P.10
Munker, R.11
Volinia, S.12
Boccadoro, M.13
Garzon, R.14
Palumbo, A.15
Aqeilan, R.I.16
Croce, C.M.17
-
42
-
-
53549103598
-
Protein Arginine Methyltransferase 5 Suppresses the Transcription of the RB Family of Tumor Suppressors in Leukemia and Lymphoma Cells
-
10.1128/MCB.00923-08, 2577430, 18694959
-
Wang L, Pal S. Protein Arginine Methyltransferase 5 Suppresses the Transcription of the RB Family of Tumor Suppressors in Leukemia and Lymphoma Cells. Molecular and Cellular Biology 2008, 28:6262-6277. 10.1128/MCB.00923-08, 2577430, 18694959.
-
(2008)
Molecular and Cellular Biology
, vol.28
, pp. 6262-6277
-
-
Wang, L.1
Pal, S.2
-
43
-
-
33750376591
-
Mir-17-5p regulates breast cancer cell proliferation by inhibiting translation of AIB1 mRNA
-
10.1128/MCB.00242-06, 1636750, 16940181
-
Hossain A, Kuo MT, Saunders GF. Mir-17-5p regulates breast cancer cell proliferation by inhibiting translation of AIB1 mRNA. Molecular and cellular biology 2006, 26(21):8191-8201. 10.1128/MCB.00242-06, 1636750, 16940181.
-
(2006)
Molecular and cellular biology
, vol.26
, Issue.21
, pp. 8191-8201
-
-
Hossain, A.1
Kuo, M.T.2
Saunders, G.F.3
-
44
-
-
67650073265
-
Cell cycle kinases as therapeutic targets for cancer
-
10.1038/nrd2907, 19568282
-
Lapenna S, Giordano A. Cell cycle kinases as therapeutic targets for cancer. Nat Rev Drug Discov 2009, 8(7):547-566. 10.1038/nrd2907, 19568282.
-
(2009)
Nat Rev Drug Discov
, vol.8
, Issue.7
, pp. 547-566
-
-
Lapenna, S.1
Giordano, A.2
-
45
-
-
84864558206
-
Network regression with predictive clustering trees
-
Stojanova D, Ceci M, Appice A, Dzeroski S. Network regression with predictive clustering trees. Data Mining and Knowledge Discovery 2012, 25(2):378-413.
-
(2012)
Data Mining and Knowledge Discovery
, vol.25
, Issue.2
, pp. 378-413
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Stojanova, D.1
Ceci, M.2
Appice, A.3
Dzeroski, S.4
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