Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy
Malignancies of alimentary tract include esophageal carcinoma (ESCA), stomach adenocarcinoma (STAD), colon adenocarcinoma (COAD), and rectum adenocarcinoma (READ). Despite of their similarities in cancer development and progression, there are numerous researches concentrating on single tumor but rel...
| Main Authors: | , , , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2021-01-01
|
| Series: | Frontiers in Oncology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fonc.2020.580276/full |
| _version_ | 1818664799587794944 |
|---|---|
| author | Yu-Chen Lu Jing-Qi Shi Zi-Xin Zhang Jia-Yi Zhou Jia-Yi Zhou Hai-Kun Zhou Yuan-Cai Feng Zhen-Hua Lu Shu-Ya Yang Xi-Yang Zhang Yang Liu Zi-Chao Li Yuan-Jie Sun Lian-He Zheng Dong-Bo Jiang Kun Yang |
| author_facet | Yu-Chen Lu Jing-Qi Shi Zi-Xin Zhang Jia-Yi Zhou Jia-Yi Zhou Hai-Kun Zhou Yuan-Cai Feng Zhen-Hua Lu Shu-Ya Yang Xi-Yang Zhang Yang Liu Zi-Chao Li Yuan-Jie Sun Lian-He Zheng Dong-Bo Jiang Kun Yang |
| author_sort | Yu-Chen Lu |
| collection | DOAJ |
| description | Malignancies of alimentary tract include esophageal carcinoma (ESCA), stomach adenocarcinoma (STAD), colon adenocarcinoma (COAD), and rectum adenocarcinoma (READ). Despite of their similarities in cancer development and progression, there are numerous researches concentrating on single tumor but relatively little on their common mechanisms. Our study explored the transcriptomic data of digestive tract cancers from The Cancer Genome Atlas database, yielding their common differentially expressed genes including 1,700 mRNAs, 29 miRNAs, and 362 long non-coding RNAs (lncRNAs). There were 12 mRNAs, 5 miRNAs, and 16 lncRNAs in the core competitive endogenous RNAs network by RNA-RNA interactions, highlighting the prognostic nodes of SERPINE1, hsa-mir-145, and SNHG1. In addition, the weighted gene co-expression network analysis (WGCNA) illustrated 20 gene modules associated with clinical traits. By taking intersections of modules related to the same trait, we got 67 common genes shared by ESCA and READ and screened 5 hub genes, including ADCY6, CXCL3, NPBWR1, TAS2R38, and PTGDR2. In conclusion, the present study found that SERPINE1/has-mir-145/SNHG1 axis acted as promising targets and the hub genes reasoned the similarity between ESCA and READ, which revealed the homogeneous tumorigenicity of digestive tract cancers at the transcriptome level and led to further comprehension and therapeutics for digestive tract cancers. |
| first_indexed | 2024-12-17T05:38:29Z |
| format | Article |
| id | doaj.art-d33f02ba311145da9fab1fe40d7f5819 |
| institution | Directory Open Access Journal |
| issn | 2234-943X |
| language | English |
| last_indexed | 2024-12-17T05:38:29Z |
| publishDate | 2021-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Oncology |
| spelling | doaj.art-d33f02ba311145da9fab1fe40d7f58192022-12-21T22:01:32ZengFrontiers Media S.A.Frontiers in Oncology2234-943X2021-01-011010.3389/fonc.2020.580276580276Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract MalignancyYu-Chen Lu0Jing-Qi Shi1Zi-Xin Zhang2Jia-Yi Zhou3Jia-Yi Zhou4Hai-Kun Zhou5Yuan-Cai Feng6Zhen-Hua Lu7Shu-Ya Yang8Xi-Yang Zhang9Yang Liu10Zi-Chao Li11Yuan-Jie Sun12Lian-He Zheng13Dong-Bo Jiang14Kun Yang15Department of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaAviation Psychology Research Office, Air Force Medical Center, Beijing, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Orthopedics, The Tangdu Hospital, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaDepartment of Immunology, School of Basic Medicine, The Fourth Military Medical University, Xi’an, ChinaMalignancies of alimentary tract include esophageal carcinoma (ESCA), stomach adenocarcinoma (STAD), colon adenocarcinoma (COAD), and rectum adenocarcinoma (READ). Despite of their similarities in cancer development and progression, there are numerous researches concentrating on single tumor but relatively little on their common mechanisms. Our study explored the transcriptomic data of digestive tract cancers from The Cancer Genome Atlas database, yielding their common differentially expressed genes including 1,700 mRNAs, 29 miRNAs, and 362 long non-coding RNAs (lncRNAs). There were 12 mRNAs, 5 miRNAs, and 16 lncRNAs in the core competitive endogenous RNAs network by RNA-RNA interactions, highlighting the prognostic nodes of SERPINE1, hsa-mir-145, and SNHG1. In addition, the weighted gene co-expression network analysis (WGCNA) illustrated 20 gene modules associated with clinical traits. By taking intersections of modules related to the same trait, we got 67 common genes shared by ESCA and READ and screened 5 hub genes, including ADCY6, CXCL3, NPBWR1, TAS2R38, and PTGDR2. In conclusion, the present study found that SERPINE1/has-mir-145/SNHG1 axis acted as promising targets and the hub genes reasoned the similarity between ESCA and READ, which revealed the homogeneous tumorigenicity of digestive tract cancers at the transcriptome level and led to further comprehension and therapeutics for digestive tract cancers.https://www.frontiersin.org/articles/10.3389/fonc.2020.580276/fullalimentary tract malignancyhomogeneous tumorigenicitytranscriptomecompeting endogenous RNAweighted gene co-expression network analysis |
| spellingShingle | Yu-Chen Lu Jing-Qi Shi Zi-Xin Zhang Jia-Yi Zhou Jia-Yi Zhou Hai-Kun Zhou Yuan-Cai Feng Zhen-Hua Lu Shu-Ya Yang Xi-Yang Zhang Yang Liu Zi-Chao Li Yuan-Jie Sun Lian-He Zheng Dong-Bo Jiang Kun Yang Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy Frontiers in Oncology alimentary tract malignancy homogeneous tumorigenicity transcriptome competing endogenous RNA weighted gene co-expression network analysis |
| title | Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy |
| title_full | Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy |
| title_fullStr | Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy |
| title_full_unstemmed | Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy |
| title_short | Transcriptome Based System Biology Exploration Reveals Homogeneous Tumorigenicity of Alimentary Tract Malignancy |
| title_sort | transcriptome based system biology exploration reveals homogeneous tumorigenicity of alimentary tract malignancy |
| topic | alimentary tract malignancy homogeneous tumorigenicity transcriptome competing endogenous RNA weighted gene co-expression network analysis |
| url | https://www.frontiersin.org/articles/10.3389/fonc.2020.580276/full |
| work_keys_str_mv | AT yuchenlu transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT jingqishi transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT zixinzhang transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT jiayizhou transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT jiayizhou transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT haikunzhou transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT yuancaifeng transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT zhenhualu transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT shuyayang transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT xiyangzhang transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT yangliu transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT zichaoli transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT yuanjiesun transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT lianhezheng transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT dongbojiang transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy AT kunyang transcriptomebasedsystembiologyexplorationrevealshomogeneoustumorigenicityofalimentarytractmalignancy |