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Exact(5)
However, if the probe densities achieved on our microarrays are similar to those observed by AFM, based on our correlations of fluorescent intensity and target molecule number, we estimate that the most intense spots on our array achieve near saturation of target-probe binding, suggesting that the majority of spotted probe is functional.
This set of proteins rather agrees with the most intense spots in 2D-gels (e.g. CBHII, cellulases, and proteases had the highest scores and spot intensities, respectively) and was in accordance with previous reports comparing both methodologies [ 27].
In practice, depending on the stain that was used, a 2-D gel image analysis may give quantitative or only qualitative results for most or only a subfraction of the most intense spots.
In the presented experiments the most intense spots, which could be reproducibly retrieved from several independent xylem sap protein extractions, were excised from 2-DE gels, digested in situ with the site-specific protease trypsin, before partial amino acid sequences were determined by tandem mass spectrometry, followed by database searches for protein identification.
The PK-resistant PrPT183A and PrPF198S forms detected with 3F4 exhibited similar gel mobility at 19-20 kDa with pH between 7.0 and 9.5 on the blots, although there was a slight difference in pH between the most intense spots (Fig. 3F and 3G).
Similar(55)
The position of the most intense spot was consistent with the theoretical mass and isoelectric point (pI) of human S100A4 as predicted by ProtParam on the Expasy web page (MW = 11728, pI = 5.85).
MALDI-MS was used to identify the most intense protein spots on the gel corresponding to proteins that were modulated by linoleic acid, and the identities of 38 up-regulated and 5 down-regulated proteins were unambiguously determined (Table 9 and 10).
MALDI-MS was used to identify 63 of the most intense protein spots on the gel corresponding to proteins that were modulated by linoleic acid and the identities of 56 up-regulated and 5 down-regulated proteins were unambiguously determined (Table 11 and 12).
The protein in the gel plug at spot 2 (the most intense protein spot) was also subjected to MS-PMF.
It is also intriguing to note that each of the PrP 2D spots III from the two conditions had different pI of the most intense PrP spot.
For example, pI of the most intense PrP spot in fCJDIns was about 9.6, and ~9.0 in non-CJD.
Related(20)
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