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Items: 27

1.

FamNet: A Framework to Identify Multiplied Modules Driving Pathway Expansion in Plants.

Ruprecht C, Mendrinna A, Tohge T, Sampathkumar A, Klie S, Fernie AR, Nikoloski Z, Persson S, Mutwil M.

Plant Physiol. 2016 Mar;170(3):1878-94. doi: 10.1104/pp.15.01281. Epub 2016 Jan 11.

2.

Glucocorticoid (dexamethasone)-induced metabolome changes in healthy males suggest prediction of response and side effects.

Bordag N, Klie S, Jürchott K, Vierheller J, Schiewe H, Albrecht V, Tonn JC, Schwartz C, Schichor C, Selbig J.

Sci Rep. 2015 Nov 3;5:15954. doi: 10.1038/srep15954.

3.

Temporal kinetics of the transcriptional response to carbon depletion and sucrose readdition in Arabidopsis seedlings.

Cookson SJ, Yadav UP, Klie S, Morcuende R, Usadel B, Lunn JE, Stitt M.

Plant Cell Environ. 2016 Apr;39(4):768-86. doi: 10.1111/pce.12642. Epub 2015 Dec 1.

PMID:
26386165
4.

Differential metabolic and coexpression networks of plant metabolism.

Omranian N, Kleessen S, Tohge T, Klie S, Basler G, Mueller-Roeber B, Fernie AR, Nikoloski Z.

Trends Plant Sci. 2015 May;20(5):266-268. doi: 10.1016/j.tplants.2015.02.002. Epub 2015 Mar 16.

PMID:
25791509
5.

Integration of transcriptomics and metabolomics data specifies the metabolic response of Chlamydomonas to rapamycin treatment.

Kleessen S, Irgang S, Klie S, Giavalisco P, Nikoloski Z.

Plant J. 2015 Mar;81(5):822-35. doi: 10.1111/tpj.12763.

6.

Co-ordination and divergence of cell-specific transcription and translation of genes in arabidopsis root cells.

Rajasundaram D, Selbig J, Persson S, Klie S.

Ann Bot. 2014 Oct;114(6):1109-23. doi: 10.1093/aob/mcu151. Epub 2014 Aug 22.

7.

Concurrent conditional clustering of multiple networks: COCONETS.

Kleessen S, Klie S, Nikoloski Z.

PLoS One. 2014 Aug 8;9(8):e103637. doi: 10.1371/journal.pone.0103637. eCollection 2014.

8.

An integrated genomic and metabolomic framework for cell wall biology in rice.

Guo K, Zou W, Feng Y, Zhang M, Zhang J, Tu F, Xie G, Wang L, Wang Y, Klie S, Persson S, Peng L.

BMC Genomics. 2014 Jul 15;15:596. doi: 10.1186/1471-2164-15-596.

9.

Decreased Nucleotide and Expression Diversity and Modified Coexpression Patterns Characterize Domestication in the Common Bean.

Bellucci E, Bitocchi E, Ferrarini A, Benazzo A, Biagetti E, Klie S, Minio A, Rau D, Rodriguez M, Panziera A, Venturini L, Attene G, Albertini E, Jackson SA, Nanni L, Fernie AR, Nikoloski Z, Bertorelle G, Delledonne M, Papa R.

Plant Cell. 2014 May;26(5):1901-1912. Epub 2014 May 21.

10.

Conserved changes in the dynamics of metabolic processes during fruit development and ripening across species.

Klie S, Osorio S, Tohge T, Drincovich MF, Fait A, Giovannoni JJ, Fernie AR, Nikoloski Z.

Plant Physiol. 2014 Jan;164(1):55-68. doi: 10.1104/pp.113.226142. Epub 2013 Nov 15.

11.

Data integration through proximity-based networks provides biological principles of organization across scales.

Kleessen S, Klie S, Nikoloski Z.

Plant Cell. 2013 Jun;25(6):1917-27. doi: 10.1105/tpc.113.111039. Epub 2013 Jun 7. Review.

12.

Network-based segmentation of biological multivariate time series.

Omranian N, Klie S, Mueller-Roeber B, Nikoloski Z.

PLoS One. 2013 May 7;8(5):e62974. doi: 10.1371/journal.pone.0062974. Print 2013.

13.

Compromise of multiple time-resolved transcriptomics experiments identifies tightly regulated functions.

Klie S, Caldana C, Nikoloski Z.

Front Plant Sci. 2012 Nov 16;3:249. doi: 10.3389/fpls.2012.00249. eCollection 2012.

14.

Principal components analysis.

Groth D, Hartmann S, Klie S, Selbig J.

Methods Mol Biol. 2013;930:527-47. doi: 10.1007/978-1-62703-059-5_22.

PMID:
23086856
15.

The Choice between MapMan and Gene Ontology for Automated Gene Function Prediction in Plant Science.

Klie S, Nikoloski Z.

Front Genet. 2012 Jun 28;3:115. doi: 10.3389/fgene.2012.00115. eCollection 2012.

16.

Inferring gene functions through dissection of relevance networks: interleaving the intra- and inter-species views.

Klie S, Mutwil M, Persson S, Nikoloski Z.

Mol Biosyst. 2012 Sep;8(9):2233-41. Epub 2012 Jun 29. Review.

PMID:
22744313
17.

Additional role of O-acetylserine as a sulfur status-independent regulator during plant growth.

Hubberten HM, Klie S, Caldana C, Degenkolbe T, Willmitzer L, Hoefgen R.

Plant J. 2012 May;70(4):666-77. doi: 10.1111/j.1365-313X.2012.04905.x. Epub 2012 Mar 8.

18.

High-density kinetic analysis of the metabolomic and transcriptomic response of Arabidopsis to eight environmental conditions.

Caldana C, Degenkolbe T, Cuadros-Inostroza A, Klie S, Sulpice R, Leisse A, Steinhauser D, Fernie AR, Willmitzer L, Hannah MA.

Plant J. 2011 Sep;67(5):869-84. doi: 10.1111/j.1365-313X.2011.04640.x. Epub 2011 Jul 11.

19.

PlaNet: combined sequence and expression comparisons across plant networks derived from seven species.

Mutwil M, Klie S, Tohge T, Giorgi FM, Wilkins O, Campbell MM, Fernie AR, Usadel B, Nikoloski Z, Persson S.

Plant Cell. 2011 Mar;23(3):895-910. doi: 10.1105/tpc.111.083667. Epub 2011 Mar 25.

20.

Complexity of automated gene annotation.

Nikoloski Z, Grimbs S, Klie S, Selbig J.

Biosystems. 2011 Apr;104(1):1-8. doi: 10.1016/j.biosystems.2010.12.003. Epub 2011 Jan 8.

PMID:
21219964
21.

Analysis of the compartmentalized metabolome - a validation of the non-aqueous fractionation technique.

Klie S, Krueger S, Krall L, Giavalisco P, Flügge UI, Willmitzer L, Steinhauser D.

Front Plant Sci. 2011 Sep 22;2:55. doi: 10.3389/fpls.2011.00055. eCollection 2011.

22.

Metabolomic and transcriptomic stress response of Escherichia coli.

Jozefczuk S, Klie S, Catchpole G, Szymanski J, Cuadros-Inostroza A, Steinhauser D, Selbig J, Willmitzer L.

Mol Syst Biol. 2010 May 11;6:364. doi: 10.1038/msb.2010.18.

23.

Biological cluster evaluation for gene function prediction.

Klie S, Nikoloski Z, Selbig J.

J Comput Biol. 2014 Jun;21(6):428-45. doi: 10.1089/cmb.2009.0129. Epub 2010 Jan 8.

PMID:
20059365
24.

[Expectations of relatives concerning palliative home care].

Wiese CH, Morgenthal HC, Vossen-Wellmann A, Kriegler M, Klie S, Heidenblut B, Bartels UE, Graf BM, Hanekop GG.

Pflege Z. 2009 Feb;62(2):92-6. German.

PMID:
19263721
25.

[Emergency care management of patients with cancer at the final stage of disease--seven cases].

Wiese CH, Duttge G, Bartels U, Klie S, Graf BM, Hanekop GG.

Anasthesiol Intensivmed Notfallmed Schmerzther. 2008 Jul;43(7-8):556-60. doi: 10.1055/s-0028-1083100. German.

PMID:
18671179
26.

Analyzing large-scale proteomics projects with latent semantic indexing.

Klie S, Martens L, Vizcaíno JA, Côté R, Jones P, Apweiler R, Hinneburg A, Hermjakob H.

J Proteome Res. 2008 Jan;7(1):182-91. Epub 2007 Nov 30.

PMID:
18047271
27.

PRIDE: new developments and new datasets.

Jones P, Côté RG, Cho SY, Klie S, Martens L, Quinn AF, Thorneycroft D, Hermjakob H.

Nucleic Acids Res. 2008 Jan;36(Database issue):D878-83. Epub 2007 Nov 22.

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