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Disclaimer: Supplementary materials have been peer-reviewed but not copyedited.

FilenameFormatSizeDescription
pmic7005-sup-0001-tables1.xls348KTable S1. Statistical analyses related to average length of RNA sequences obtained from 454 sequencing experiments performed to create the different 454 databases (.xls file)
pmic7005-sup-0001-tables1.xls348KTable S2. Table S2: Raw Data from peptides identified in the 3 replicates (R1, R2, R3) using the 3 databases SGN, 454db1, and 454db2. S2 a: SGNdb_R1; S2b: SGNdb_R2; S2 c: SGNdb_R3; S2 d: 454db1_R1; S2e: 454db1_R2; S2f: 454db1_R3; S2 g: 454db2_R1; S2 h: 454db2_R2; S21: 454db2_R3. (file “LopezCasado_Proteomics_SuppTable_S2” at ftp://ted.bti.cornell.edu/pub/tomato_454_unigene)
pmic7005-sup-0001-tables1.xls348KTable S3. Numbers of proteins, peptide, and identified spectra in tomato pollen proteome using SGN db and 454 generated databases (454 db1 and 454 db2), considering biological modifications (bm) as an option when performing the search against specific database. R1, R2, and R3 indicate three independent biological replicates
pmic7005-sup-0001-tables1.xls348KTable S4. Table S5. Number of proteins, distinct peptides, and spectral identified at three false discovery rate (FDR) level
pmic7005-sup-0001-tables1.xls348KTable S5. Functional classification of tomato pollen proteins using iTRAQ and SGN db interrogation (.xls file)
pmic7005-sup-0001-tables1.xls348KTable S6. Functional classification of tomato pollen proteins using iTRAQ and 454 db2 interrogation (.xls file)
pmic7005-sup-0001-tables1.xls348KTable S7. Proteins differentially expressed in one specific genotype and found in one or more biological replicates using SGN db (.xls file)
pmic7005-sup-0001-tables1.xls348KTable S8. Proteins differentially expressed in one specific genotype and found in one or more biological replicates using 454 db2 (.xls file)
pmic7005-sup-0001-tables1.xls348KTable S9. Proteins differentially expressed in any specific genotype, identified using both SGN db and 454 db2. Each protein showed a >2-fold expression (p-value <0.05) in one genotype compared with the other three, and detected at least in two of the three iTRAQ experimental replicates. SD, standard deviation (.xls file)
pmic7005-sup-0001-tables1.xls348KTable S10. Proteins differentially expressed in pair-wise comparisons of genotypes, identified using both SGN db and 454 db2. Each protein showed a >2-fold expression (p < 0.05) in one genotype compared with one other genotype, and was detected in at least two of the three iTRAQ experiment replicates. Ratio refers to relative abundance between the genotypes indicated. SD, standard deviation

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