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Regarding the results of the PAM cell line, we manually confirmed the methylation patterns of several randomly selected CpG sites detected in our RRBS by independent bisulfite sequencing.
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Or maybe the photo is of a restaurant menu – and since other metadata indicates the city where it was shot – people could search until they found the restaurant in question, then manually confirm the related details.
To manually confirm the presence of gene transcription, we mapped reads using CLC Assembly Cell.
To confirm the utility of the Web site for document retrieval, we additionally requested two curators to submit five PubMed keyword queries on the Web site and to manually confirm the accuracy of the retrieved results.
We manually confirmed these predictions using TBLASTN searches and identified one additional GFP-like gene (see Materials and Methods), increasing the number of putative NvFPs encoded in the genome to seven (NvFPs1 7; Table 1).
The resulting alignments were manually confirmed, and the output files were subsequently used in ClonalFrame software.
Sequences were then manually confirmed, and the relevant domains visualized using the MEME suite (Bailey et al. 2009).
We manually confirmed all the trees.
They were subsequently manually confirmed using the current Btau_4.0 assembly.
All of the additional K-Ras, B-Raf and PIK3CA mutations identified by pyrosequencing analysis were retrospectively manually confirmed in the dideoxy sequencing traces (e.g., samples 3983 and 4076, Figure 2).
The deduced amino acid sequences of candidate nsLTP genes were manually confirmed to harbour the 8 CM (C … C … CC … CXC … C … C, where X represents any amino acid) and genes lacking the motif and encoding for the putative proline-rich proteins were excluded from further analyses.
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