Systemic evaluation of cellular reprogramming processes exploiting a novel R-tool: eegc
文献类型：期刊论文
| 作者 | Zhou, Xiaoyuan3,4,5; Nardini, Christine3,4; Meng, Guofeng5; Mei, Hongkang5; Nardini, Christine1,2; , |
| 刊名 | BIOINFORMATICS
 |
| 出版日期 | 2017 |
| 卷号 | 33期号:16页码:2532-2538 |
| 关键词 | breast cancer transformation epigenomics genome stability H3K9me3 transcription regulation |
| ISSN号 | 1367-4803 |
| DOI | 10.1093/bioinformatics/btx205 |
| 文献子类 | Article |
| 英文摘要 | Motivation: Cells derived by cellular engineering, i.e. differentiation of induced pluripotent stem cells and direct lineage reprogramming, carry a tremendous potential for medical applications and in particular for regenerative therapies. These approaches consist in the definition of lineage-specific experimental protocols that, by manipulation of a limited number of biological cues-niche mimicking factors, (in) activation of transcription factors, to name a few-enforce the final expression of cell-specific (marker) molecules. To date, given the intricate complexity of biological pathways, these approaches still present imperfect reprogramming fidelity, with uncertain consequences on the functional properties of the resulting cells. Results: We propose a novel tool eegc to evaluate cellular engineering processes, in a systemic rather than marker-based fashion, by integrating transcriptome profiling and functional analysis. Our method clusters genes into categories representing different states of (trans) differentiation and further performs functional and gene regulatory network analyses for each of the categories of the engineered cells, thus offering practical indications on the potential lack of the reprogramming protocol. |
| 学科主题 | Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology ; Computer Science ; Mathematical & Computational Biology ; Mathematics |
| WOS关键词 | DEFINED FACTORS ; TRANSCRIPTION FACTORS ; ENDOTHELIAL-CELLS ; DIRECT CONVERSION ; STEM-CELLS ; FIBROBLASTS ; DIFFERENTIATION ; IDENTITY ; NETWORKS ; NEURONS |
| 语种 | 英语 |
| WOS记录号 | WOS:000407139800013 |
| 出版者 | OXFORD UNIV PRESS |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.144/handle/331004/1097]  |
| 专题 | 中国科学院上海生命科学研究院营养科学研究所 |
| 作者单位 | 1.Personal Genom Srl, Str Grazie 15, Verona, Italy, 2.CNR IAC Mauro Picone, Via Taurini 19, Rome, Italy; 3.Chinese Acad Sci, Shanghai Inst Biol Sci, CAS MPG Partner Inst Computat Biol, Shanghai, Peoples R China; 4.Univ Chinese Acad Sci, Beijing, Peoples R China; 5.Platform Technol & Sci China, Computat & Modeling Sci, Shanghai, Peoples R China; |
| 推荐引用方式 GB/T 7714 | Zhou, Xiaoyuan,Nardini, Christine,Meng, Guofeng,et al. Systemic evaluation of cellular reprogramming processes exploiting a novel R-tool: eegc[J]. BIOINFORMATICS,2017,33(16):2532-2538. |
| APA | Zhou, Xiaoyuan,Nardini, Christine,Meng, Guofeng,Mei, Hongkang,Nardini, Christine,&,.(2017).Systemic evaluation of cellular reprogramming processes exploiting a novel R-tool: eegc.BIOINFORMATICS,33(16),2532-2538. |
| MLA | Zhou, Xiaoyuan,et al."Systemic evaluation of cellular reprogramming processes exploiting a novel R-tool: eegc".BIOINFORMATICS 33.16(2017):2532-2538. |
入库方式： OAI收割
来源：上海营养与健康研究所
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