American Journal of Bioinformatics Research

American Journal of Bioinformatics Research publishes all the newest and distinguished research articles, reviews and letters in all areas of bioinformatics and computational biology. Each issue contains a series of timely, in-depth written articles by leaders in the field, covering a wide range of the integration of biology with computer and information science.

Fei He

Post-doctoral Fellow, Brookhaven National Lab, USA

Research Areas

bioinformatics, systems biology, gene expression profiling, transcriptome, genomics, plant biology, embryogenesis

Publications: Journals

[1]  He, F., Zhang, Y., Chen, H., Zhang, Z., & Peng, Y.-L. (2008). The prediction of protein-protein interaction networks in rice blast fungus. BMC Genomics, 9(1), 519.
[2]  He, F., Zhou, Y., & Zhang, Z. (2010). Deciphering the Arabidopsis floral transition process by integrating a protein-protein interaction network and gene expression data. Plant Physiology, pp–110.
[3]  Li, Z.-G., He, F.(co-first authors), Zhang, Z., & Peng, Y.-L. (2012). Prediction of protein--protein interactions between Ralstonia solanacearum and Arabidopsis thaliana. Amino Acids, 42(6), 2363–2371.
[4]  Du, Z., He, F.(co-first authors), Yu, Z., Bowerman, B., & Bao, Z. (2015). E3 ubiquitin ligases promote progression of differentiation during C. elegans embryogenesis. Developmental Biology, 398(2), 267–279.
[5]  Du, Z., Santella, A., He, F., Tiongson, M., & Bao, Z. (2014). De Novo Inference of Systems-Level Mechanistic Models of Development from Live-Imaging-Based Phenotype Analysis. Cell, 156(1), 359–372
[6]  Chen, S., Yang, Y., Shi, W., Ji, Q., He, F., Zhang, Z., … Xu, M. (2008). Badh2, encoding betaine aldehyde dehydrogenase, inhibits the biosynthesis of 2-acetyl-1-pyrroline, a major component in rice fragrance. The Plant Cell Online, 20(7), 1850–1861.
[7]  Du, Z., Santella, A., He, F., …others. (2015) The Regulatory Landscape of Lineage Differentiation in a Metazoan Embryo. Developmental Cell
[8]  Foroni, E., Serafini, F., Amidani, D., Turroni, F., He, F., Bottacini, F., … others. (2011). Genetic analysis and morphological identification of pilus-like structures in members of the genus Bifidobacterium. Microb. Cell Fact, 10(Suppl 1), S16.
[9]  Li, H., He, F., Zhang, Z., & Zheng, S. J. (2011). Critical roles of amino acids Ser231, His107 and Asp156 of Staphylococcus sciuri exfoliative toxin C (ExhC) in the induction of skin exfoliations in neonate mice. Biologia, 66(6), 1189–1195.
[10]  Ventura, M., Turroni, F., Zomer, A., Foroni, E., Giubellini, V., Bottacini, F., …, He F., …, others. (2009). The Bifidobacterium dentium Bd1 genome sequence reflects its genetic adaptation to the human oral cavity. PLoS Genetics, 5(12), e1000785.
[11]  Wang, T.-Y., He, F., Hu, Q.-W., & Zhang, Z. (2011). A predicted protein--protein interaction network of the filamentous fungus Neurospora crassa. Molecular bioSystems, 7(7), 2278–2285.
[12]  Xu, Q., Xiong, G., Li, P., He, F., Huang, Y., Wang, K. B., … Hua, J. P. (2012). Analysis of complete nucleotide sequences of 12 Gossypium chloroplast genomes: origin and evolution of allotetraploids. PLoS One, 7(8), e37128.
[13]  Zhou, Y., Zhou, Y.-S., He, F., Song, J., & Zhang, Z. (2012). Can simple codon pair usage predict protein--protein interaction? Molecular BioSystems, 8(5), 1396–1404.
[14]  Wang, S., Zhang, P., He, F., Wang, J.-G., Sun, J.-Z., Li, Z.-L., … others. (2014). Combination of specific single chain antibody variable fragment and siRNA has a synergistic inhibitory effect on the propagation of avian influenza virus H5N1 in chicken cells. Virology Journal, 11(1), 1–8.