Phylogenetic trees of the closest eukaryotic homologs of clones AY577333 and AY577329. Phylogenetic trees of the closest eukaryotic homologs of clones.

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binding sites 58 of the 473 unambiguously assigned phosphorylation sites are predicted by Scansite to be sites for binding. 50 of these correspond.

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PLGEM parameters are reasonably stable to decreasing number of replicates. PLGEM parameters are reasonably stable to decreasing number of replicates. A.

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Distribution of disorder in the cytosolic phosphoproteome

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Phosphopeptides identified harboring minimal binding motifs

Percentage of proteins identified in envelope membrane extracts according to the purification method and the number of transmembrane domains. Percentage.

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Visual validation of the computational outputs.

Novel p53 target genes identified by RNA-Seq, pSILAC and ChIP-Seq.

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Relative abundance of proteins identified in MALDI IMS

Comparison of ROC plots for the PMF quality metrics using test dataset 2 (44 C. difficile proteins).a, ROC curves for coverage (open squares), MC (solid.

Representative example of LAXIC performance for complex plant phosphoproteome. Representative example of LAXIC performance for complex plant phosphoproteome.A.

Success rates in validation of antibodies from external providers

Results from the Morris water task.

Degree of glycosylation of human milk LF from individual donors across lactation. Degree of glycosylation of human milk LF from individual donors across.

A, Base peak chromatogram of apomyoglobin digest generated by 0

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The evolutionary conservation of the phosphoproteomes.a, E. coli. b, B. subtilis. The evolutionary conservation of the phosphoproteomes.a, E. coli. b,

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Colonopshere-enriched proteins display functional interactions.

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High correlation of expression changes of NMD-regulated genes identified by both the pSILAC screen and previously reported global RNA screens after UPF1.

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Protein microarrays for validation of antibodies.

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Plot of the deviation of the predicted pI value of every peptide spectrum from the average pI calculated for each fraction for validated (a) and non-validated.

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Changes in protein expression during distinct stages of NK cell differentiation. Changes in protein expression during distinct stages of NK cell differentiation.

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Phosphopeptides identified harboring minimal binding motifs

Survey of phosphorylation motifs

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Model of the change in receptor structure on engagement of the ligand IFN-γ. Model of the change in receptor structure on engagement of the ligand IFN-γ.

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Phylogenetic trees of the closest eukaryotic homologs of clones AY577333 and AY577329. Phylogenetic trees of the closest eukaryotic homologs of clones AY577333 and AY577329. Trees were generated by the neighbor-joining method using default parameters of the ClustalX program. SE, squalene epoxidase. Note the absence of Drosophila or C. elegans homologs in both cases. Alignments of the sequences comprising these trees are shown in the supplemental material on line. Hanna Jaaro et al. Mol Cell Proteomics 2005;4:328-333 The American Society for Biochemistry and Molecular Biology