کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
8421460 | 1545927 | 2015 | 9 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
A global network-based protocol for functional inference of hypothetical proteins in Synechocystis sp. PCC 6803
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کلمات کلیدی
موضوعات مرتبط
علوم زیستی و بیوفناوری
بیوشیمی، ژنتیک و زیست شناسی مولکولی
بیوتکنولوژی یا زیستفناوری
پیش نمایش صفحه اول مقاله
![عکس صفحه اول مقاله: A global network-based protocol for functional inference of hypothetical proteins in Synechocystis sp. PCC 6803 A global network-based protocol for functional inference of hypothetical proteins in Synechocystis sp. PCC 6803](/preview/png/8421460.png)
چکیده انگلیسی
Functional inference of hypothetical proteins (HPs) is a significant task in the post-genomic era. We described here a network-based protocol for functional inference of HPs using experimental transcriptomic, proteomic, and protein-protein interaction (PPI) datasets. The protocol includes two steps: i) co-expression networks were constructed using large proteomic or transcriptomic datasets of Synechocystis sp. PCC 6803 under various stress conditions, and then combined with a Synechocystis PPI network to generate bi-colored networks that include both annotated proteins and HPs; ii) a global algorithm was adapted to the bi-colored networks for functional inference of HPs. The algorithm ranked the associations between genes/proteins with known GO functional categories, and assumed that the top one ranked HP for each GO functional category might have a function related to the GO functional category. We applied the protocol to all HPs of the model cyanobacterium Synechocystis, and were able to assign putative functions to 122 HPs that have never been functionally characterized previously. Finally, the functional inference was validated by the known biological information of operon, and results showed that more than 70% HPs could be correctly validated. The study provided a new protocol to integrate different types of OMICS datasets for functional inference of HPs, and could be useful in achieving new insights into the Synechocystis metabolism.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Journal of Microbiological Methods - Volume 116, September 2015, Pages 44-52
Journal: Journal of Microbiological Methods - Volume 116, September 2015, Pages 44-52
نویسندگان
Lianju Gao, Guangsheng Pei, Lei Chen, Weiwen Zhang,