Research Article

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03/20/2015
Differentially expressed genes; Macrobrachium nipponense; Ovary; Reproduction-related genes; Testis

This study utilized high-throughput RNA sequencing technology to identify reproduction- and development-related genes of Macrobrachium nipponense by analyzing gene expression profiles of testis and ovary. More than 20 million 1 x 51-bp reads were obtained by Illumina sequencing, generating more than 7.7 and 11.7 million clean reads in the testis and ovary library, respectively. ... more

H. Qiao; Y.W. Xiong; S.F. Jiang; H.T. Fu; S.M. Sun; S.B. Jin; Y.S. Gong; W.Y. Zhang
03/20/2015
Co-expression network; Differentially expressed genes; Hepatitis C; Pathway

We predicted potential genes and identified pathways associated with hepatitis C. The gene expression profiles of GSE40184 from blood samples and GSE38597 from liver biopsy samples were downloaded from the GEO database. Differentially expressed genes (DEGs) were recognized using the Limma Package. The Pearson correlation test was used to construct the co-expression network of DEGs. Gene ... more

Y. Tang; Q. Tang; C. Dong; X. Li; Z. Zhang; F. An
03/27/2015
Chinese cabbage; Gene expression; Hsf; Interaction network; Phylogenetic analysis

Chinese cabbage (Brassica rapa ssp. pekinensis) is one of the most important vegetable crops grown worldwide, and various methods exist for selection, propagation, and cultivation. The entire Chinese cabbage genome has been sequenced, and the heat shock transcription factor family (Hsfs) has been found to play a central role in plant growth and development and in the ... more

X.Y. Huang; P. Tao; B.Y. Li; W.H. Wang; Z.C. Yue; J.L. Lei; X.M. Zhong
10/08/2014
Cytokines; GILZ; Glucocorticoid; Protein metabolism; Sepsis

Sepsis is a complex inflammatory response to infection, associating with dramatic metabolic disorders. Although the mechanisms of immune response during sepsis have been largely clarified, current studies rarely pay attention to the disordered protein metabolism in sepsis. In this study, L6 rat skeletal muscle cells treated with serum from septic rats were used as an in vitro ... more

J. Xiong; L. Xu; W.M. Qu; Z.L. Li; Z.H. Shang; Y.H. Li; S.H. Yang; Z.H. Yang
12/04/2013
Functional enrichment analysis; Hereditary hemochromatosis; Iron overload; Module analysis; Myelodysplastic syndrome

The aim of this study was to identify feature genes that are associated with hereditary hemochromatosis (HHC; iron overload) in cardiac and skeletal muscle of mice. First, the expression profile GSE9726 was downloaded from Gene Expression Omnibus database which included 12 samples. Then the differentially expressed genes (DEGs) were identified by R language. Furthermore, the KUPS software ... more

J. Wang; X. Zhou; J. Zhao; Z. Li; X. Li
03/11/2013
Differentially expressed genes; Regulation network; Testicular seminoma

Testicular seminoma has become the most common solid malignancy in young men, especially in the 20s group. We obtained the gene expression profile of human testicular seminoma cells from NCBI, identified the differentially expressed genes of testicular seminoma cells of different stages, and constructed the regulation networks of different stages of testicular seminoma using ... more

J.J. Sha; Y.H. Dong; D.M. Liu; J.J. Bo; Y.R. Huang; Z. Li; P. Ping
10/07/2013
CMAP; Differentially expressed genes; Pulmonary hypoxia-related diseases; Similar drugs

Exposure of humans to low levels of environmental oxygen results in alveolar hypoxia and normally causes chronic pulmonary hypertension and morphological alterations of precapillary pulmonary vessels. In this study, the microarray dataset GSE11341 was used to identify potential differentially expressed genes related with human lung microvascular endothelial cell hypoxia. In addition, gene ... more

L. Zhou; L.M. Wang; H.M. Song; Y.Q. Shen; W.J. Xu; J.H. Xu; Y. Liu; W.W. Yan; J.F. Jiang
06/01/2015
Differentially expressed genes; Epstein-Barr virus-positive nasopharyngeal carcinoma; Target genes; Typical miRNAs

This study aims to identify the crucial miRNAs in Epstein-Barr virus-positive nasopharyngeal carcinoma (NPC) and their target genes. Gene expression profile data (GSE12452) that included 31 NPC and 10 normal nasopharyngeal tissue specimens were downloaded. Differentially expressed genes (DEGs) were identified using significance analysis of microarrays. The underlying function of DEGs was ... more

L.H. Zhu; X.T. Miao; N.Y. Wang
02/28/2013
Biomarker; Muscle-invasive bladder cancer; Pathway analysis; Stroma

To bring about improvements in cancer biology research and elucidate mechanism-based therapeutic targets, we studied the proteome expression profile of purified normal urothelial cells (cancer cells) and normal stromal cells (cancerous stromal cells). Based on the expression profile, biomarker discovery and the mechanisms of multi-step carcinogenesis were explored. We found that 1412/ ... more

H.T. Niu; X.J. Qi; Y.Q. Liu; Y.W. Cao; Q. Dong; X.S. Wang
01/31/2014
Co-expression network; Expressed genes; Module analysis; Pathway analysis

This study aimed to identify differentially expressed genes (DEGs) of unruptured intracranial aneurysms (IAs) and provide beneficial information for early diagnosis and treatment of IAs. The gene expression profile GSE26969 from the Gene Expression Omnibus database was downloaded, which included six human IA samples: three intracranial arterial aneurysm samples and three normal ... more

L. Chen; Y. Fan; J. Wan

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