-
1
-
-
77649252269
-
Visualization of omics data for systems biology
-
Gehlenborg, N., O'Donoghue, S.I., Baliga, N.S., Goesmann, A., Hibbs, M.A., Kitano, H., Kohlbacher, O., Neuweger, H., Schneider, R., Tenenbaum, D. et al. (2010) Visualization of omics data for systems biology. Nat. Methods, 7, S56-68.
-
(2010)
Nat. Methods
, vol.7
-
-
Gehlenborg, N.1
O'Donoghue, S.I.2
Baliga, N.S.3
Goesmann, A.4
Hibbs, M.A.5
Kitano, H.6
Kohlbacher, O.7
Neuweger, H.8
Schneider, R.9
Tenenbaum, D.10
-
2
-
-
0032441150
-
Cluster analysis and display of genome-wide expression patterns
-
DOI 10.1073/pnas.95.25.14863
-
Eisen, M.B., Spellman, P.T., Brown, P.O. and Botstein, D. (1998) Cluster analysis and display of genome-wide expression patterns. Proc. Natl Acad. Sci. USA, 95, 14863-14868. (Pubitemid 29003722)
-
(1998)
Proceedings of the National Academy of Sciences of the United States of America
, vol.95
, Issue.25
, pp. 14863-14868
-
-
Eisen, M.B.1
Spellman, P.T.2
Brown, P.O.3
Botstein, D.4
-
3
-
-
0033028596
-
Systematic determination of genetic network architecture
-
DOI 10.1038/10343
-
Tavazoie, S., Hughes, J.D., Campbell, M.J., Cho, R.J. and Church, G.M. (1999) Systematic determination of genetic network architecture. Nat. Genet., 22, 281-285. (Pubitemid 29297256)
-
(1999)
Nature Genetics
, vol.22
, Issue.3
, pp. 281-285
-
-
Tavazoie, S.1
Hughes, J.D.2
Campbell, M.J.3
Cho, R.J.4
Church, G.M.5
-
4
-
-
0033027794
-
Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation
-
DOI 10.1073/pnas.96.6.2907
-
Tamayo, P., Slonim, D., Mesirov, J., Zhu, Q., Kitareewan, S., Dmitrovsky, E., Lander, E.S. and Golub, T.R. (1999) Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation. Proc. Natl Acad. Sci. USA, 96, 2907-2912. (Pubitemid 29148817)
-
(1999)
Proceedings of the National Academy of Sciences of the United States of America
, vol.96
, Issue.6
, pp. 2907-2912
-
-
Tamayo, P.1
Slonim, D.2
Mesirov, J.3
Zhu, Q.4
Kitareewan, S.5
Dmitrovsky, E.6
Lander, E.S.7
Golub, T.R.8
-
5
-
-
58149421595
-
Analysis of complex statistical variables into principal components
-
Hotelling, H. (1933) Analysis of complex statistical variables into principal components. J. Educ. Psychol., 24, 417-441.
-
(1933)
J. Educ. Psychol.
, vol.24
, pp. 417-441
-
-
Hotelling, H.1
-
7
-
-
33746617306
-
Local multidimensional scaling
-
DOI 10.1016/j.neunet.2006.05.014, PII S0893608006000724
-
Venna, J. and Kaski, S. (2006) Local multidimensional scaling. Neural Networks, 19, 889-899. (Pubitemid 44148947)
-
(2006)
Neural Networks
, vol.19
, Issue.6-7
, pp. 889-899
-
-
Venna, J.1
Kaski, S.2
-
10
-
-
77954911545
-
Transcriptome analysis of early organogenesis in human embryos
-
Fang, H., Yang, Y., Li, C., Fu, S., Yang, Z., Jin, G., Wang, K., Zhang, J. and Jin, Y. (2010) Transcriptome analysis of early organogenesis in human embryos. Dev. Cell, 19, 174-184.
-
(2010)
Dev. Cell
, vol.19
, pp. 174-184
-
-
Fang, H.1
Yang, Y.2
Li, C.3
Fu, S.4
Yang, Z.5
Jin, G.6
Wang, K.7
Zhang, J.8
Jin, Y.9
-
11
-
-
24644519314
-
Significance analysis of time course microarray experiments
-
DOI 10.1073/pnas.0504609102
-
Storey, J.D., Xiao, W., Leek, J.T., Tompkins, R.G. and Davis, R.W. (2005) Significance analysis of time course microarray experiments. Proc. Natl Acad. Sci. USA, 102, 12837-12842. (Pubitemid 41279452)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.36
, pp. 12837-12842
-
-
Storey, J.D.1
Xiao, W.2
Leek, J.T.3
Tompkins, R.G.4
Davis, R.W.5
-
12
-
-
27944487902
-
Cell biology: Logic of the yeast metabolic cycle: Temporal compartmentalization of cellular processes
-
DOI 10.1126/science.1120499
-
Tu, B.P., Kudlicki, A., Rowicka, M. and McKnight, S.L. (2005) Logic of the yeast metabolic cycle: temporal compartmentalization of cellular processes. Science, 310, 1152-1158. (Pubitemid 41681736)
-
(2005)
Science
, vol.310
, Issue.5751
, pp. 1152-1158
-
-
Tu, B.P.1
Kudlicki, A.2
Rowicka, M.3
McKnight, S.L.4
-
13
-
-
74949130457
-
Distinct transcriptomes define rostral and caudal serotonin neurons
-
Wylie, C.J., Hendricks, T.J., Zhang, B., Wang, L., Lu, P., Leahy, P., Fox, S., Maeno, H. and Deneris, E.S. (2010) Distinct transcriptomes define rostral and caudal serotonin neurons. J. Neurosci., 30, 670-684.
-
(2010)
J. Neurosci.
, vol.30
, pp. 670-684
-
-
Wylie, C.J.1
Hendricks, T.J.2
Zhang, B.3
Wang, L.4
Lu, P.5
Leahy, P.6
Fox, S.7
Maeno, H.8
Deneris, E.S.9
-
14
-
-
33747885673
-
Bioconductor: An open source framework for bioinformatics and computational biology
-
DOI 10.1016/S0076-6879(06)11008-3, PII S0076687906110083, DNA Microarrays, Part B: Databases and Statistics
-
Reimers, M. and Carey, V.J. (2006) Bioconductor: an open source framework for bioinformatics and computational biology. Methods Enzymol., 411, 119-134. (Pubitemid 44291424)
-
(2006)
Methods in Enzymology
, vol.411
, pp. 119-134
-
-
Reimers, M.1
Carey, V.J.2
-
15
-
-
18744369640
-
Use of within-array replicate spots for assessing differential expression in microarray experiments
-
DOI 10.1093/bioinformatics/bti270
-
Smyth, G.K., Michaud, J. and Scott, H.S. (2005) Use of within-array replicate spots for assessing differential expression in microarray experiments. Bioinformatics, 21, 2067-2075. (Pubitemid 40668046)
-
(2005)
Bioinformatics
, vol.21
, Issue.9
, pp. 2067-2075
-
-
Smyth, G.K.1
Michaud, J.2
Scott, H.S.3
-
16
-
-
78650211909
-
Foxj1 regulates floor plate cilia architecture and modifies the response of cells to sonic hedgehog signalling
-
Cruz, C., Ribes, V., Kutejova, E., Cayuso, J., Lawson, V., Norris, D., Stevens, J., Davey, M., Blight, K., Bangs, F. et al. (2010) Foxj1 regulates floor plate cilia architecture and modifies the response of cells to sonic hedgehog signalling. Development, 137, 4271-4282.
-
(2010)
Development
, vol.137
, pp. 4271-4282
-
-
Cruz, C.1
Ribes, V.2
Kutejova, E.3
Cayuso, J.4
Lawson, V.5
Norris, D.6
Stevens, J.7
Davey, M.8
Blight, K.9
Bangs, F.10
-
18
-
-
0035942271
-
Significance analysis of microarrays applied to the ionizing radiation response
-
DOI 10.1073/pnas.091062498
-
Tusher, V.G., Tibshirani, R. and Chu, G. (2001) Significance analysis of microarrays applied to the ionizing radiation response. Proc. Natl Acad. Sci. USA, 98, 5116-5121. (Pubitemid 32397092)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.9
, pp. 5116-5121
-
-
Tusher, V.G.1
Tibshirani, R.2
Chu, G.3
-
19
-
-
33747894577
-
TM4 microarray software suite
-
Saeed, A.I., Bhagabati, N.K., Braisted, J.C., Liang, W., Sharov, V., Howe, E.A., Li, J., Thiagarajan, M., White, J.A. and Quackenbush, J. (2006) TM4 microarray software suite. Methods Enzymol., 411, 134-193.
-
(2006)
Methods Enzymol.
, vol.411
, pp. 134-193
-
-
Saeed, A.I.1
Bhagabati, N.K.2
Braisted, J.C.3
Liang, W.4
Sharov, V.5
Howe, E.A.6
Li, J.7
Thiagarajan, M.8
White, J.A.9
Quackenbush, J.10
-
20
-
-
0037311919
-
TM4: A free, open-source system for microarray data management and analysis
-
Saeed, A.I., Sharov, V., White, J., Li, J., Liang, W., Bhagabati, N., Braisted, J., Klapa, M., Currier, T., Thiagarajan, M. et al. (2003) TM4: a free, open-source system for microarray data management and analysis. Biotechniques, 34, 374-378. (Pubitemid 36184095)
-
(2003)
BioTechniques
, vol.34
, Issue.2
, pp. 374-378
-
-
Saeed, A.I.1
Sharov, V.2
White, J.3
Li, J.4
Liang, W.5
Bhagabati, N.6
Braisted, J.7
Klapa, M.8
Currier, T.9
Thiagarajan, M.10
Sturn, A.11
Snuffin, M.12
Rezantsev, A.13
Popov, D.14
Ryltsov, A.15
Kostukovich, E.16
Borisovsky, I.17
Liu, Z.18
Vinsavich, A.19
Trush, V.20
Quackenbush, J.21
more..
-
21
-
-
33645515900
-
Genome-wide identification of direct targets of the Drosophila retinal determination protein Eyeless
-
Ostrin, E.J., Li, Y., Hoffman, K., Liu, J., Wang, K., Zhang, L., Mardon, G. and Chen, R. (2006) Genome-wide identification of direct targets of the Drosophila retinal determination protein Eyeless. Genome Res., 16, 466-476.
-
(2006)
Genome Res.
, vol.16
, pp. 466-476
-
-
Ostrin, E.J.1
Li, Y.2
Hoffman, K.3
Liu, J.4
Wang, K.5
Zhang, L.6
Mardon, G.7
Chen, R.8
-
22
-
-
0038729666
-
A model of molecular interactions on short oligonucleotide microarrays
-
DOI 10.1038/nbt836
-
Zhang, L., Miles, M.F. and Aldape, K.D. (2003) A model of molecular interactions on short oligonucleotide microarrays. Nat. Biotechnol., 21, 818-821. (Pubitemid 36791403)
-
(2003)
Nature Biotechnology
, vol.21
, Issue.7
, pp. 818-821
-
-
Zhang, L.1
Miles, M.F.2
Aldape, K.D.3
-
23
-
-
10944269085
-
Fast stochastic neighbor embedding: A trust-region algorithm
-
2004 IEEE International Joint Conference on Neural Networks - Proceedings
-
Nam, K., Je, H. and Choi, S. (2004) Fast stochastic neighbor embedding: a trust-region algorithm. 2004 Ieee International Joint Conference on Neural Networks, Vols 1-4, Proceedings, 123-128. (Pubitemid 40011728)
-
(2004)
IEEE International Conference on Neural Networks - Conference Proceedings
, vol.1
, pp. 123-128
-
-
Nam, K.1
Je, H.2
Choi, S.3
-
24
-
-
77957908161
-
Scale-independent quality criteria for dimensionality reduction
-
Lee, J.A. and Verleysen, M. (2010) Scale-independent quality criteria for dimensionality reduction. Pattern Recogn. Lett., 31, 2248-2257.
-
(2010)
Pattern Recogn. Lett.
, vol.31
, pp. 2248-2257
-
-
Lee, J.A.1
Verleysen, M.2
|