-
1
-
-
0003925291
-
Opuscoli di Fisica Animale e Vegetabile
-
Spallanzani L. Opuscoli di Fisica Animale e Vegetabile. Modena: Società Tipografica 1776, 203-285.
-
(1776)
Modena: Società Tipografica
, pp. 203-285
-
-
Spallanzani, L.1
-
2
-
-
0001179757
-
Die Anabiose der Tardigraden
-
Baumann H. Die Anabiose der Tardigraden. Zool Jahrb 1922, 45:501-556.
-
(1922)
Zool Jahrb
, vol.45
, pp. 501-556
-
-
Baumann, H.1
-
3
-
-
50649086750
-
Effect of very low temperatures on the fauna of moss
-
Rahm P. Effect of very low temperatures on the fauna of moss. Proc K Ned AkadWet Ser C Biol Med Sci 1921, 23:235-248.
-
(1921)
Proc K Ned AkadWet Ser C Biol Med Sci
, vol.23
, pp. 235-248
-
-
Rahm, P.1
-
4
-
-
77955931739
-
Anhydrobiotic Abilities of Tardigrades
-
Heidelberg: Springer Berlin, Lubzens E, Cerda J, Clark M
-
Schill R. Anhydrobiotic Abilities of Tardigrades. Dormancy and Resistance in Harsh Environments, Volume 21 of Topics in Current Genetics 2010, 133-146. Heidelberg: Springer Berlin, Lubzens E, Cerda J, Clark M, [http://dx.doi.org/10.1007/978-3-642-12422-8{set minus}_8].
-
(2010)
Dormancy and Resistance in Harsh Environments, Volume 21 of Topics in Current Genetics
, pp. 133-146
-
-
Schill, R.1
-
5
-
-
0035060319
-
Cryptobiosis-a peculiar state of biological organization
-
10.1016/S1096-4959(01)00300-1, 11290443
-
Clegg JS. Cryptobiosis-a peculiar state of biological organization. Comp Biochem Physiol B Biochem Mol Biol 2001, 128(4):613-624. 10.1016/S1096-4959(01)00300-1, 11290443.
-
(2001)
Comp Biochem Physiol B Biochem Mol Biol
, vol.128
, Issue.4
, pp. 613-624
-
-
Clegg, J.S.1
-
7
-
-
37849009975
-
Trehalose and anhydrobiosis in tardigrades - evidence for divergence in responses to dehydration
-
10.1111/j.1742-4658.2007.06198.x, 18070104
-
Hengherr S, Heyer AG, Köhler HR, Schill RO. Trehalose and anhydrobiosis in tardigrades - evidence for divergence in responses to dehydration. FEBS J 2008, 275:281-288. 10.1111/j.1742-4658.2007.06198.x, 18070104.
-
(2008)
FEBS J
, vol.275
, pp. 281-288
-
-
Hengherr, S.1
Heyer, A.G.2
Köhler, H.R.3
Schill, R.O.4
-
8
-
-
0002925738
-
Cryptobiosis in Arctic tardigrades with special attention to the appearance of trehalose
-
Institute of polar Ecology. Kiel University
-
Westh P, Ramløv H. Cryptobiosis in Arctic tardigrades with special attention to the appearance of trehalose. Greenland Excursion, 1988, Institute of polar Ecology. Kiel University.
-
(1988)
Greenland Excursion,
-
-
Westh, P.1
Ramløv, H.2
-
9
-
-
84989625587
-
Trehalose accumulation in the tardigrade Adorybiotus coronifer during anhydrobiosis
-
Westh P, Ramløv H. Trehalose accumulation in the tardigrade Adorybiotus coronifer during anhydrobiosis. J Exp Zool 1991, 258:303-311.
-
(1991)
J Exp Zool
, vol.258
, pp. 303-311
-
-
Westh, P.1
Ramløv, H.2
-
10
-
-
79957439281
-
Trehalose in three species of desiccation tolerant tardigrades
-
Jönsson KI, Persson O. Trehalose in three species of desiccation tolerant tardigrades. Open Zool J 2010, 3:1-5.
-
(2010)
Open Zool J
, vol.3
, pp. 1-5
-
-
Jönsson, K.I.1
Persson, O.2
-
11
-
-
33847312694
-
Induction of Hsp70 by desiccation, ionising radiation and heat-shock in the eutardigrade Richtersius coronifer
-
10.1016/j.cbpb.2006.10.111, 17261378
-
Jönsson KI, Schill RO. Induction of Hsp70 by desiccation, ionising radiation and heat-shock in the eutardigrade Richtersius coronifer. Comp Biochem Physiol B Biochem Mol Biol 2007, 146(4):456-460. [http://dx.doi.org/10.1016/j.cbpb.2006.10.111], 10.1016/j.cbpb.2006.10.111, 17261378.
-
(2007)
Comp Biochem Physiol B Biochem Mol Biol
, vol.146
, Issue.4
, pp. 456-460
-
-
Jönsson, K.I.1
Schill, R.O.2
-
13
-
-
0035709916
-
Cryptobiosis in the Eutardigrade Adorybiotus (Richtersius) coronifer: tolerance to alcohols temperature and de novo protein synthesis
-
Ramløv H, Westh P. Cryptobiosis in the Eutardigrade Adorybiotus (Richtersius) coronifer: tolerance to alcohols temperature and de novo protein synthesis. Zoologischer Anzeiger 2001, 240:517-523.
-
(2001)
Zoologischer Anzeiger
, vol.240
, pp. 517-523
-
-
Ramløv, H.1
Westh, P.2
-
14
-
-
77955664570
-
Stress response in tardigrades: differential gene expression of molecular chaperones
-
10.1007/s12192-009-0158-1, 3082643, 19943197
-
Reuner A, Hengherr S, Mali B, Förster F, Arndt D, Reinhardt R, Dandekar T, Frohme M, Brümmer F, Schill RO. Stress response in tardigrades: differential gene expression of molecular chaperones. Cell Stress Chaperones 2010, 15(4):423-430. [http://dx.doi.org/10.1007/s12192-009-0158-1], 10.1007/s12192-009-0158-1, 3082643, 19943197.
-
(2010)
Cell Stress Chaperones
, vol.15
, Issue.4
, pp. 423-430
-
-
Reuner, A.1
Hengherr, S.2
Mali, B.3
Förster, F.4
Arndt, D.5
Reinhardt, R.6
Dandekar, T.7
Frohme, M.8
Brümmer, F.9
Schill, R.O.10
-
15
-
-
2442540307
-
Stress gene (hsp70) sequences and quantitative expression in Milnesium tardigradum (Tardigrada) during active and cryptobiotic stages
-
Schill RO, Steinbrück GHB, Köhler HR. Stress gene (hsp70) sequences and quantitative expression in Milnesium tardigradum (Tardigrada) during active and cryptobiotic stages. J Exp Biol 2004, 207(Pt 10):1607-1613.
-
(2004)
J Exp Biol
, vol.207
, Issue.PART 10
, pp. 1607-1613
-
-
Schill, R.O.1
Steinbrück, G.H.B.2
Köhler, H.R.3
-
16
-
-
79955046049
-
Investigating heat shock proteins of tardigrades in active versus anhydrobiotic state using shotgun proteomics
-
Schokraie E, Hotz-Wagenblatt A, Warnken U, Frohme M, Dandekar T, Schill RO, Schnölzer M. Investigating heat shock proteins of tardigrades in active versus anhydrobiotic state using shotgun proteomics. Journal of Zoological Systematics and Evolutionary Research 2011, 49:111-119. [http://dx.doi.org/10.1111/j.1439-0469.2010.00608.x].
-
(2011)
Journal of Zoological Systematics and Evolutionary Research
, vol.49
, pp. 111-119
-
-
Schokraie, E.1
Hotz-Wagenblatt, A.2
Warnken, U.3
Frohme, M.4
Dandekar, T.5
Schill, R.O.6
Schnölzer, M.7
-
17
-
-
82555174721
-
Heat shock proteins in encysted and anhydrobiotic eutardigrades
-
Altiero T, Guidetti R, Boschini D, Rebecchi L. Heat shock proteins in encysted and anhydrobiotic eutardigrades. J LImnol 2012, 71(1):211-215.
-
(2012)
J LImnol
, vol.71
, Issue.1
, pp. 211-215
-
-
Altiero, T.1
Guidetti, R.2
Boschini, D.3
Rebecchi, L.4
-
18
-
-
77951159431
-
Transcriptome survey of the anhydrobiotic tardigrade Milnesium tardigradum in comparison with Hypsibius dujardini and Richtersius coronifer
-
10.1186/1471-2164-11-168, 2848246, 20226016
-
Mali B, Grohme MA, Förster F, Dandekar T, Schnölzer M, Reuter D, Wełnicz W, Schill RO, Frohme M. Transcriptome survey of the anhydrobiotic tardigrade Milnesium tardigradum in comparison with Hypsibius dujardini and Richtersius coronifer. BMC Genomics 2010, 11:168. [http://dx.doi.org/10.1186/1471-2164-11-168], 10.1186/1471-2164-11-168, 2848246, 20226016.
-
(2010)
BMC Genomics
, vol.11
, pp. 168
-
-
Mali, B.1
Grohme, M.A.2
Förster, F.3
Dandekar, T.4
Schnölzer, M.5
Reuter, D.6
Wełnicz, W.7
Schill, R.O.8
Frohme, M.9
-
19
-
-
79955023505
-
Bioinformatics identifies tardigrade molecular adaptations including the DNA-j family and first steps towards dynamical modelling
-
Förster F, Beisser D, Frohme M, Schill RO, Dandekar T. Bioinformatics identifies tardigrade molecular adaptations including the DNA-j family and first steps towards dynamical modelling. J Zoological Syst Evolutionary Res 2011, 49:120-126. [http://dx.doi.org/10.1111/j.1439-0469.2010.00609.x].
-
(2011)
J Zoological Syst Evolutionary Res
, vol.49
, pp. 120-126
-
-
Förster, F.1
Beisser, D.2
Frohme, M.3
Schill, R.O.4
Dandekar, T.5
-
20
-
-
33645983211
-
Efficient algorithms for detecting signaling pathways in protein interaction networks
-
10.1089/cmb.2006.13.133, 16597231
-
Scott J, Ideker T, Karp RM, Sharan R. Efficient algorithms for detecting signaling pathways in protein interaction networks. J Comput Biol 2006, 13(2):133-144. [http://dx.doi.org/10.1089/cmb.2006.13.133], 10.1089/cmb.2006.13.133, 16597231.
-
(2006)
J Comput Biol
, vol.13
, Issue.2
, pp. 133-144
-
-
Scott, J.1
Ideker, T.2
Karp, R.M.3
Sharan, R.4
-
21
-
-
46249128543
-
Identifying functional modules in protein-protein interaction networks: an integrated exact approach
-
10.1093/bioinformatics/btn161, 2718639, 18586718
-
Dittrich MT, Klau GW, Rosenwald A, Dandekar T, Müller T. Identifying functional modules in protein-protein interaction networks: an integrated exact approach. Bioinformatics 2008, 24(13):i223-i231. [http://dx.doi.org/10.1093/bioinformatics/btn161], 10.1093/bioinformatics/btn161, 2718639, 18586718.
-
(2008)
Bioinformatics
, vol.24
, Issue.13
-
-
Dittrich, M.T.1
Klau, G.W.2
Rosenwald, A.3
Dandekar, T.4
Müller, T.5
-
22
-
-
0000801240
-
Discovering regulatory and signalling circuits in molecular interaction networks
-
10.1093/bioinformatics/18.suppl_1.S233, 12169552
-
Ideker T, Ozier O, Schwikowski B, Siegel AF. Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics 2002, 18(Suppl 1):S233-S240. 10.1093/bioinformatics/18.suppl_1.S233, 12169552.
-
(2002)
Bioinformatics
, vol.18
, Issue.SUPPL. 1
-
-
Ideker, T.1
Ozier, O.2
Schwikowski, B.3
Siegel, A.F.4
-
23
-
-
34548742517
-
Identification of functional modules using network topology and high-throughput data
-
10.1186/1752-0509-1-8, 1839897, 17408515
-
Ulitsky I, Shamir R. Identification of functional modules using network topology and high-throughput data. BMC Syst Biol 2007, 1:8. [http://dx.doi.org/10.1186/1752-0509-1-8], 10.1186/1752-0509-1-8, 1839897, 17408515.
-
(2007)
BMC Syst Biol
, vol.1
, pp. 8
-
-
Ulitsky, I.1
Shamir, R.2
-
24
-
-
84864131140
-
Robustness and accuracy of functional modules in integrated network analysis
-
Beisser D, Brunkhorst S, Dandekar T, Klau GW, Dittrich MT, Müller T. Robustness and accuracy of functional modules in integrated network analysis. Bioinformatics 2012, in press., [http://dx.doi.org/10.1093/bioinformatics/bts265].
-
(2012)
Bioinformatics
-
-
Beisser, D.1
Brunkhorst, S.2
Dandekar, T.3
Klau, G.W.4
Dittrich, M.T.5
Müller, T.6
-
25
-
-
78650647272
-
Integrated functional networks of process, tissue, and developmental stage specific interactions in Arabidopsis thaliana
-
10.1186/1752-0509-4-180, 3023688, 21194434
-
Pop A, Huttenhower C, Iyer-Pascuzzi A, Benfey PN, Troyanskaya OG. Integrated functional networks of process, tissue, and developmental stage specific interactions in Arabidopsis thaliana. BMC Syst Biol 2010, 4:180. [http://dx.doi.org/10.1186/1752-0509-4-180], 10.1186/1752-0509-4-180, 3023688, 21194434.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 180
-
-
Pop, A.1
Huttenhower, C.2
Iyer-Pascuzzi, A.3
Benfey, P.N.4
Troyanskaya, O.G.5
-
26
-
-
79953098927
-
Modeling antibiotic and cytotoxic effects of the dimeric isoquinoline IQ-143 on metabolism and its regulation in Staphylococcus aureus, Staphylococcus epidermidis and human cells
-
10.1186/gb-2011-12-3-r24, 3129674, 21418624
-
Cecil A, Rikanović C, Ohlsen K, Liang C, Bernhardt J, Oelschlaeger TA, Gulder T, Bringmann G, Holzgrabe U, Unger M, Dandekar T. Modeling antibiotic and cytotoxic effects of the dimeric isoquinoline IQ-143 on metabolism and its regulation in Staphylococcus aureus, Staphylococcus epidermidis and human cells. Genome Biol 2011, 12(3):R24. [http://dx.doi.org/10.1186/gb-2011-12-3-r24], 10.1186/gb-2011-12-3-r24, 3129674, 21418624.
-
(2011)
Genome Biol
, vol.12
, Issue.3
-
-
Cecil, A.1
Rikanović, C.2
Ohlsen, K.3
Liang, C.4
Bernhardt, J.5
Oelschlaeger, T.A.6
Gulder, T.7
Bringmann, G.8
Holzgrabe, U.9
Unger, M.10
Dandekar, T.11
-
27
-
-
77649229357
-
Interpreting metabolomic profiles using unbiased pathway models
-
10.1371/journal.pcbi.1000692, 2829050, 20195502
-
Deo RC, Hunter L, Lewis GD, Pare G, Vasan RS, Chasman D, Wang TJ, Gerszten RE, Roth FP. Interpreting metabolomic profiles using unbiased pathway models. PLoS Comput Biol 2010, 6(2):e1000692. [http://dx.doi.org/10.1371/journal.pcbi.1000692], 10.1371/journal.pcbi.1000692, 2829050, 20195502.
-
(2010)
PLoS Comput Biol
, vol.6
, Issue.2
-
-
Deo, R.C.1
Hunter, L.2
Lewis, G.D.3
Pare, G.4
Vasan, R.S.5
Chasman, D.6
Wang, T.J.7
Gerszten, R.E.8
Roth, F.P.9
-
28
-
-
73149122136
-
Applications of genome-scale metabolic reconstructions
-
2795471, 19888215
-
Oberhardt MA, Palsson B, Papin JA. Applications of genome-scale metabolic reconstructions. Mol Syst Biol 2009, 5:320. [http://dx.doi.org/10.1038/msb.2009.77], 2795471, 19888215.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 320
-
-
Oberhardt, M.A.1
Palsson, B.2
Papin, J.A.3
-
29
-
-
33745433792
-
Putative regulatory sites unraveled by network-embedded thermodynamic analysis of metabolome data
-
1681506, 16788595
-
Kümmel A, Panke S, Heinemann M. Putative regulatory sites unraveled by network-embedded thermodynamic analysis of metabolome data. Mol Syst Biol 2006, 2:2006.0034. [http://dx.doi.org/10.1038/msb4100074], 1681506, 16788595.
-
(2006)
Mol Syst Biol
, vol.2
-
-
Kümmel, A.1
Panke, S.2
Heinemann, M.3
-
30
-
-
51349092391
-
Network-based prediction of human tissue-specific metabolism
-
10.1038/nbt.1487, 18711341
-
Shlomi T, Cabili MN, Herrgård MJ, Palsson B, Ruppin E. Network-based prediction of human tissue-specific metabolism. Nat Biotechnol 2008, 26(9):1003-1010. [http://dx.doi.org/10.1038/nbt.1487], 10.1038/nbt.1487, 18711341.
-
(2008)
Nat Biotechnol
, vol.26
, Issue.9
, pp. 1003-1010
-
-
Shlomi, T.1
Cabili, M.N.2
Herrgård, M.J.3
Palsson, B.4
Ruppin, E.5
-
31
-
-
33748766328
-
Global transcriptional and physiological responses of Saccharomyces cerevisiae to ammonium, L-alanine, or L-glutamine limitation
-
10.1128/AEM.00548-06, 1563674, 16957246
-
Usaite R, Patil KR, Grotkjaer T, Nielsen J, Regenberg B. Global transcriptional and physiological responses of Saccharomyces cerevisiae to ammonium, L-alanine, or L-glutamine limitation. Appl Environ Microbiol 2006, 72(9):6194-6203. [http://dx.doi.org/10.1128/AEM.00548-06], 10.1128/AEM.00548-06, 1563674, 16957246.
-
(2006)
Appl Environ Microbiol
, vol.72
, Issue.9
, pp. 6194-6203
-
-
Usaite, R.1
Patil, K.R.2
Grotkjaer, T.3
Nielsen, J.4
Regenberg, B.5
-
32
-
-
59149103774
-
Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae
-
10.1371/journal.pcbi.1000270, 2614473, 19180179
-
Bradley PH, Brauer MJ, Rabinowitz JD, Troyanskaya OG. Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae. PLoS Comput Biol 2009, 5:e1000270. [http://dx.doi.org/10.1371/journal.pcbi.1000270], 10.1371/journal.pcbi.1000270, 2614473, 19180179.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Bradley, P.H.1
Brauer, M.J.2
Rabinowitz, J.D.3
Troyanskaya, O.G.4
-
33
-
-
14544268137
-
Uncovering transcriptional regulation of metabolism by using metabolic network topology
-
10.1073/pnas.0406811102, 549453, 15710883
-
Patil KR, Nielsen J. Uncovering transcriptional regulation of metabolism by using metabolic network topology. Proc Natl Acad Sci U S A 2005, 102(8):2685-2689. [http://dx.doi.org/10.1073/pnas.0406811102], 10.1073/pnas.0406811102, 549453, 15710883.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, Issue.8
, pp. 2685-2689
-
-
Patil, K.R.1
Nielsen, J.2
-
34
-
-
33750705293
-
Integration of metabolome data with metabolic networks reveals reporter reactions
-
1682015, 17016516
-
Cakir T, Patil KR, iIsen Onsan Z, Ulgen KO, Kirdar B, Nielsen J. Integration of metabolome data with metabolic networks reveals reporter reactions. Mol Syst Biol 2006, 2:50. [http://dx.doi.org/10.1038/msb4100085], 1682015, 17016516.
-
(2006)
Mol Syst Biol
, vol.2
, pp. 50
-
-
Cakir, T.1
Patil, K.R.2
iIsen Onsan, Z.3
Ulgen, K.O.4
Kirdar, B.5
Nielsen, J.6
-
35
-
-
77951972600
-
BioNet: an R-Package for the functional analysis of biological networks
-
10.1093/bioinformatics/btq089, 20189939
-
Beisser D, Klau GW, Dandekar T, Mueller T, Dittrich M. BioNet: an R-Package for the functional analysis of biological networks. Bioinformatics 2010, 26:1129-1130. [http://dx.doi.org/10.1093/bioinformatics/btq089], 10.1093/bioinformatics/btq089, 20189939.
-
(2010)
Bioinformatics
, vol.26
, pp. 1129-1130
-
-
Beisser, D.1
Klau, G.W.2
Dandekar, T.3
Mueller, T.4
Dittrich, M.5
-
36
-
-
0033982936
-
KEGG: kyoto encyclopedia of genes and genomes
-
10.1093/nar/28.1.27, 102409, 10592173
-
Kanehisa M, Goto S. KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res 2000, 28:27-30. 10.1093/nar/28.1.27, 102409, 10592173.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
37
-
-
0035845501
-
Correspondence analysis applied to microarray data
-
10.1073/pnas.181597298, 58552, 11535808
-
Fellenberg K, Hauser NC, Brors B, Neutzner A, Hoheisel JD, Vingron M. Correspondence analysis applied to microarray data. Proc Natl Acad Sci U S A 2001, 98(19):10781-10786. [http://dx.doi.org/10.1073/pnas.181597298], 10.1073/pnas.181597298, 58552, 11535808.
-
(2001)
Proc Natl Acad Sci U S A
, vol.98
, Issue.19
, pp. 10781-10786
-
-
Fellenberg, K.1
Hauser, N.C.2
Brors, B.3
Neutzner, A.4
Hoheisel, J.D.5
Vingron, M.6
-
38
-
-
0000941980
-
A distribution-free K-sample test against ordered alternatives
-
Jonckheere AR. A distribution-free K-sample test against ordered alternatives. Biometrika 1954, 41:133-145.
-
(1954)
Biometrika
, vol.41
, pp. 133-145
-
-
Jonckheere, A.R.1
-
39
-
-
0000061572
-
The asymptotic normality and consistency of Kendall's test against trend, when ties are present in one ranking
-
Terpstra TJ. The asymptotic normality and consistency of Kendall's test against trend, when ties are present in one ranking. Proc Kon Ned Akad v Wetensch 1952, 55:327-333.
-
(1952)
Proc Kon Ned Akad v Wetensch
, vol.55
, pp. 327-333
-
-
Terpstra, T.J.1
-
40
-
-
0001576277
-
K-sample rank tests for umbrella alternatives
-
Mack H, Wolfe D. K-sample rank tests for umbrella alternatives. J Am Stat Ass 1981, 76:175-181.
-
(1981)
J Am Stat Ass
, vol.76
, pp. 175-181
-
-
Mack, H.1
Wolfe, D.2
-
41
-
-
34547588704
-
KAAS: an automatic genome annotation and pathway reconstruction server
-
1933193, 17526522, Web Server issue
-
Moriya Y, Itoh M, Okuda S, Yoshizawa AC, Kanehisa M. KAAS: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Res 2007, 35(Web Server issue):W182-W185. [http://dx.doi.org/10.1093/nar/gkm321], 1933193, 17526522.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Moriya, Y.1
Itoh, M.2
Okuda, S.3
Yoshizawa, A.C.4
Kanehisa, M.5
-
43
-
-
0033757963
-
Metabolite profiling for plant functional genomics
-
10.1038/81137, 11062433
-
Fiehn O, Kopka J, Dörmann P, Altmann T, Trethewey RN, Willmitzer L. Metabolite profiling for plant functional genomics. Nat Biotechnol 2000, 18(11):1157-1161. [http://dx.doi.org/10.1038/81137], 10.1038/81137, 11062433.
-
(2000)
Nat Biotechnol
, vol.18
, Issue.11
, pp. 1157-1161
-
-
Fiehn, O.1
Kopka, J.2
Dörmann, P.3
Altmann, T.4
Trethewey, R.N.5
Willmitzer, L.6
-
44
-
-
38949205718
-
Nonsupervised construction and application of mass spectral and retention time index libraries from time-of-flight gas chromatography-mass spectrometry metabolite profiles
-
10.1007/978-1-59745-244-1_2, 17035678
-
Erban A, Schauer N, Fernie AR, Kopka J. Nonsupervised construction and application of mass spectral and retention time index libraries from time-of-flight gas chromatography-mass spectrometry metabolite profiles. Methods Mol Biol 2007, 358:19-38. 10.1007/978-1-59745-244-1_2, 17035678.
-
(2007)
Methods Mol Biol
, vol.358
, pp. 19-38
-
-
Erban, A.1
Schauer, N.2
Fernie, A.R.3
Kopka, J.4
-
45
-
-
40049092920
-
TagFinder for the quantitative analysis of gas chromatography-mass spectrometry (GC-MS)-based metabolite profiling experiments
-
10.1093/bioinformatics/btn023, 18204057
-
Luedemann A, Strassburg K, Erban A, Kopka J. TagFinder for the quantitative analysis of gas chromatography-mass spectrometry (GC-MS)-based metabolite profiling experiments. Bioinformatics 2008, 24(5):732-737. [http://dx.doi.org/10.1093/bioinformatics/btn023], 10.1093/bioinformatics/btn023, 18204057.
-
(2008)
Bioinformatics
, vol.24
, Issue.5
, pp. 732-737
-
-
Luedemann, A.1
Strassburg, K.2
Erban, A.3
Kopka, J.4
-
46
-
-
79954566035
-
Decision tree supported substructure prediction of metabolites from GC-MS profiles
-
10.1007/s11306-010-0198-7, 2874469, 20526350
-
Hummel J, Strehmel N, Selbig J, Walther D, Kopka J. Decision tree supported substructure prediction of metabolites from GC-MS profiles. Metabolomics 2010, 6(2):322-333. [http://dx.doi.org/10.1007/s11306-010-0198-7], 10.1007/s11306-010-0198-7, 2874469, 20526350.
-
(2010)
Metabolomics
, vol.6
, Issue.2
, pp. 322-333
-
-
Hummel, J.1
Strehmel, N.2
Selbig, J.3
Walther, D.4
Kopka, J.5
-
47
-
-
48749132126
-
Retention index thresholds for compound matching in GC-MS metabolite profiling
-
10.1016/j.jchromb.2008.04.042, 18501684
-
Strehmel N, Hummel J, Erban A, Strassburg K, Kopka J. Retention index thresholds for compound matching in GC-MS metabolite profiling. J Chromatogr B Analyt Technol Biomed Life Sci 2008, 871(2):182-190. [http://dx.doi.org/10.1016/j.jchromb.2008.04.042], 10.1016/j.jchromb.2008.04.042, 18501684.
-
(2008)
J Chromatogr B Analyt Technol Biomed Life Sci
, vol.871
, Issue.2
, pp. 182-190
-
-
Strehmel, N.1
Hummel, J.2
Erban, A.3
Strassburg, K.4
Kopka, J.5
-
48
-
-
70449701929
-
Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades
-
10.1186/1471-2164-10-469, 2768748, 19821996
-
Förster F, Liang C, Shkumatov A, Beisser D, Engelmann JC, Schnölzer M, Frohme M, Müller T, Schill RO, Dandekar T. Tardigrade workbench: comparing stress-related proteins, sequence-similar and functional protein clusters as well as RNA elements in tardigrades. BMC Genomics 2009, 10:469. [http://dx.doi.org/10.1186/1471-2164-10-469], 10.1186/1471-2164-10-469, 2768748, 19821996.
-
(2009)
BMC Genomics
, vol.10
, pp. 469
-
-
Förster, F.1
Liang, C.2
Shkumatov, A.3
Beisser, D.4
Engelmann, J.C.5
Schnölzer, M.6
Frohme, M.7
Müller, T.8
Schill, R.O.9
Dandekar, T.10
-
49
-
-
0031955518
-
Base-calling of automated sequencer traces using phred. I. Accuracy assessment
-
Ewing B, Hillier L, Wendl MC, Green P. Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res 1998, 8(3):175-185.
-
(1998)
Genome Res
, vol.8
, Issue.3
, pp. 175-185
-
-
Ewing, B.1
Hillier, L.2
Wendl, M.C.3
Green, P.4
-
50
-
-
0031978181
-
Base-calling of automated sequencer traces using phred. II. Error probabilities
-
Ewing B, Green P. Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res 1998, 8(3):186-194.
-
(1998)
Genome Res
, vol.8
, Issue.3
, pp. 186-194
-
-
Ewing, B.1
Green, P.2
-
51
-
-
84871926999
-
Cross_match
-
Green P. cross_match. [http://www.phrap.org].
-
-
-
Green, P.1
-
52
-
-
84871802437
-
SnoWhite: A cleaning pipeline for Roche 454 cDNA sequences
-
Dlugosch KM. SnoWhite: A cleaning pipeline for Roche 454 cDNA sequences. [http://www.kdlugosch.net/software].
-
-
-
Dlugosch, K.M.1
-
53
-
-
33745634395
-
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
-
10.1093/bioinformatics/btl158, 16731699
-
Li W, Godzik A. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 2006, 22(13):1658-1659. [http://dx.doi.org/10.1093/bioinformatics/btl158], 10.1093/bioinformatics/btl158, 16731699.
-
(2006)
Bioinformatics
, vol.22
, Issue.13
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
-
54
-
-
70450186082
-
SAGx: Statistical Analysis of the GeneChip
-
1.22.0. 2010. [R package version 1.22.0]
-
Broberg P. SAGx: Statistical Analysis of the GeneChip. 1.22.0. 2010. [http://home.swipnet.se/pibroberg/expression_hemsida1.html]. [R package version 1.22.0].
-
-
-
Broberg, P.1
-
55
-
-
65649116900
-
KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor
-
10.1093/bioinformatics/btp167, 2682514, 19307239
-
Zhang JD, Wiemann S. KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor. Bioinformatics 2009, 25(11):1470-1471. [http://dx.doi.org/10.1093/bioinformatics/btp167], 10.1093/bioinformatics/btp167, 2682514, 19307239.
-
(2009)
Bioinformatics
, vol.25
, Issue.11
, pp. 1470-1471
-
-
Zhang, J.D.1
Wiemann, S.2
-
56
-
-
43349094507
-
The igraph software package for complex network research
-
Csardi G, Nepusz T. The igraph software package for complex network research. InterJournal 2006, Complex Systems:1695. [http://igraph.sf.net.
-
(2006)
InterJournal
, vol.Complex Systems
, pp. 1695
-
-
Csardi, G.1
Nepusz, T.2
-
57
-
-
0037313750
-
Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network
-
10.1101/gr.234503, 420374, 12566402
-
Förster J, Famili I, Fu P, Palsson B, Nielsen J. Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network. Genome Res 2003, 13(2):244-253. [http://dx.doi.org/10.1101/gr.234503], 10.1101/gr.234503, 420374, 12566402.
-
(2003)
Genome Res
, vol.13
, Issue.2
, pp. 244-253
-
-
Förster, J.1
Famili, I.2
Fu, P.3
Palsson, B.4
Nielsen, J.5
-
58
-
-
0038156106
-
Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values
-
10.1093/bioinformatics/btg148, 12835267
-
Pounds S, Morris SW. Estimating the occurrence of false positives and false negatives in microarray studies by approximating and partitioning the empirical distribution of p-values. Bioinformatics 2003, 19(10):1236-1242. 10.1093/bioinformatics/btg148, 12835267.
-
(2003)
Bioinformatics
, vol.19
, Issue.10
, pp. 1236-1242
-
-
Pounds, S.1
Morris, S.W.2
-
59
-
-
28744458859
-
Bioconductor: open software development for computational biology and bioinformatics
-
10.1186/gb-2004-5-10-r80, 545600, 15461798
-
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol 2004, 5(10):R80. [http://dx.doi.org/10.1186/gb-2004-5-10-r80], 10.1186/gb-2004-5-10-r80, 545600, 15461798.
-
(2004)
Genome Biol
, vol.5
, Issue.10
-
-
Gentleman, R.C.1
Carey, V.J.2
Bates, D.M.3
Bolstad, B.4
Dettling, M.5
Dudoit, S.6
Ellis, B.7
Gautier, L.8
Ge, Y.9
Gentry, J.10
Hornik, K.11
Hothorn, T.12
Huber, W.13
Iacus, S.14
Irizarry, R.15
Leisch, F.16
Li, C.17
Maechler, M.18
Rossini, A.J.19
Sawitzki, G.20
Smith, C.21
Smyth, G.22
Tierney, L.23
Yang, J.Y.H.24
Zhang, J.25
more..
-
61
-
-
1142306112
-
VEGAN, a package of R functions for community ecology
-
Dixon P, Palmer MW. VEGAN, a package of R functions for community ecology. J Vegetation Sci 2003, 14(6):927-930. [http://dx.doi.org/10.1658/1100-9233(2003)014[0927:VAPORF]2.0.CO;2].
-
(2003)
J Vegetation Sci
, vol.14
, Issue.6
, pp. 927-930
-
-
Dixon, P.1
Palmer, M.W.2
-
62
-
-
0034069495
-
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium
-
10.1038/75556, 3037419, 10802651
-
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 2000, 25:25-29. [http://dx.doi.org/10.1038/75556], 10.1038/75556, 3037419, 10802651.
-
(2000)
Nat Genet
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
Ball, C.A.2
Blake, J.A.3
Botstein, D.4
Butler, H.5
Cherry, J.M.6
Davis, A.P.7
Dolinski, K.8
Dwight, S.S.9
Eppig, J.T.10
Harris, M.A.11
Hill, D.P.12
Issel-Tarver, L.13
Kasarskis, A.14
Lewis, S.15
Matese, J.C.16
Richardson, J.E.17
Ringwald, M.18
Rubin, G.M.19
Sherlock, G.20
more..
-
63
-
-
33846689706
-
Using GOstats to test gene lists for GO term association
-
10.1093/bioinformatics/btl567, 17098774
-
Falcon S, Gentleman R. Using GOstats to test gene lists for GO term association. Bioinformatics 2007, 23(2):257-258. 10.1093/bioinformatics/btl567, 17098774.
-
(2007)
Bioinformatics
, vol.23
, Issue.2
, pp. 257-258
-
-
Falcon, S.1
Gentleman, R.2
|