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| 1 | A comparison of next-generation sequencing analysis methods for cancer xenograft samples显示文摘The application of next-generation sequencing(NGS) technology in cancer is influenced by the quality and purity of tissue samples. This issue is especially critical for patient-derived xenograft(PDX) models,which have proven to be by far the best preclinical tool for investigating human tumor biology, because the sensitivity and specificity of NGS analysis in xenograft samples would be compromised by the contamination of mouse DNA and RNA. This definitely affects downstream analyses by causing inaccurate mutation calling and gene expression estimates. The reliability of NGS data analysis for cancer xenograft samples is therefore highly dependent on whether the sequencing reads derived from the xenograft could be distinguished from those originated from the host. That is, each sequence read needs to be accurately assigned to its original species. Here, we review currently available methodologies in this field,including Xenome, Disambiguate, bamcmp and pdx Blacklist, and provide guidelines for users. | Wentao Dai Jixiang Liu Quanxue Li Wei Liu Yi-Xue Li Yuan-Yuan Li | 2018 | Journal of Genetics and Genomics2018，45，7： | 2 |
| 2 | Comparison between hot-gas bypass defrosting and reverse-cycle defrosting methods on an air-to-water heat pump显示文摘 | Dong Huang Quanxu Li Xiuling Yuan | 2008 | Applied Energy2008，，9： | 1 |
| 3 | Two-Dimensional Supervised Local Similarity and Diversity Projection显示文摘 | Gao Quanxue Xu Hui Li Yiying | | 0，，10： | 1 |
| 4 | Two-dimensional Super- vised Local Similarity and Diversity Projection显示文摘 | Gao Quanxue Xu Hui Li Yiying | 2010 | Pattern Recog- nition2010，43，10： | 1 |
| 5 | Comparison between hot-gas bypass defrosting and reverse-cycle defrosting methods on an air-to-water heat pump显示文摘 | Huang Dong Li Quanxu Yuan Xiuling | 2009 | Applied Energy2009，86，9： | 1 |
| 6 | Comparison between hot-gas bypass defrosting and reverse-cycle defrosting methods on an air-to-water heat pump显示文摘 | Huang Dong Li Quanxu Yuan Xiuling | 2009 | AppliedEnergy2009，86，9： | 1 |
| 7 | Secrecy Transmission of NOMA-OTFS Based Multicast-Unicast Streaming显示文摘This paper investigates the security performance of a cooperative multicast-unicast system,where the users present the feature of high mobility.Specifically,we develop the non-orthogonal multiple access(NOMA)based orthogonal time frequency space(OTFS)transmission scheme,namely NOMAOTFS,in order to combat Doppler effect as well as to improve the spectral efficiency.Further,we propose a power allocation method addressing the trade-off between the reliability of multicast streaming and the confidentiality of unicast streaming.Based on that,we utilize the relay selection strategy,to improve the security of unicast streaming.In the context of multicastunicast streaming,our simulation findings validate the effectiveness of the NOMA-OTFS based cooperative transmission,which can significantly outperform the existing NOMA-OFDM in terms of both reliability and security. | Junfan Hu Jia Shi Xianyu Wang Xiaoju Lu Zan Li Zhuangzhuang Tie Quanxue Gao | 2023 | China Communications2023，20，1： | 1 |
| 8 | Development of a Detection Method for Assaying Calf Intestine Alkaline Phosphatase Activity显示文摘[Objective]This study was to develop a detection method for assaying calf intestine alkaline phosphatase activity in scientific research. [Method]By simulating the conditions and buffers for assaying calf intestine alkaline phosphatase used in the scientific research,the parameters influencing substrate concentration,reaction duration,coloration time and buffer p H were optimized. [Result]The activity of alkaline phosphatase detected varied hugely among different buffers,and potassium ferricyanide solution added with boracic acid achieved the stable coloration. The optimal water bath time was determined as 10 min,and the substrate concentration was optimized as 0. 04 mol / L. The increasing temperature did not have a large influence on low temperature enzymatic activity while did on high concentration enzymatic activity. When the buffer p H was 7. 0- 8. 0,the detection stability of alkaline phosphatase could be maintained well. The ion intensity of buffer had little effects on alkaline phosphatase activity. [Conclusion]A detection method for assaying calf intestine alkaline phosphatase activity in scientific research was successfully developed in this study. | Lin Lin Lai Xiaofang Li Yi Liu Yixiong Lan Quanxue Lai Xintian Yang Guowu | 2015 | Animal Husbandry and Feed Science2015，7，3： | 0 |
| 9 | TGPred:a tumor gene prediction webserver for analyzing structural and functional impacts of variants显示文摘With the increasing use of high-throughput sequencing technology in tumor research,a large number of somatic variations are being identified and some of them have proved to be responsible for tumorigenesis(Cancer Genome Atlas Research Network et al.,2013).Investigating structural and functional impacts of tumor somatic variants would greatly help to identify causal variations,understand the mechanisms of carcinogenesis,and develop novel anti-tumor therapies.Therefore,many efforts have recently been made to map genomic variations to 3D protein structure,such as G23D(Solomon et al.,2016)and G2S(Wang et al.,2018). | Jixiang Liu Wei Liu Xue-Ling Li Quanxue Li Wentao Dai Yuan-Yuan Li | 2020 | Journal of Molecular Cell Biology2020，12，7： | 0 |
| 10 | Gene dysregulation analysis builds a mechanistic signature for prognosis and therapeutic benefit in colorectal cancer显示文摘The implementation of cancer precision medicine requires biomarkers or signatures for predicting prognosis and therapeutic benefits.Most of current efforts in this field are paying much more attention to predictive accuracy than to molecular mechanistic interpretability.Mechanism-driven strategy has recently emerged,aiming to build signatures with both predictive power and explanatory power.Driven by this strategy,we developed a robust gene dysregulation analysis framework with machine learning algorithms,which is capable of exploring gene dysregulations underlying carcinogenesis from high-dimensional data with cooperativity and synergy between regulators and several other transcriptional regulation rules taken into consideration.We then applied the framework to a colorectal cancer(CRC)cohort from The Cancer Genome Atlas.The identified CRC-related dysregulations significantly covered known carcinogenic processes and exhibited good prognostic effect.By choosing dysregulations with greedy strategy,we built a four-dysregulation(4-DysReg)signature,which has the capability of predicting prognosis and adjuvant chemotherapy benefit.4-DysReg has the potential to explain carcinogenesis in terms of dysfunctional transcriptional regulation.These results demonstrate that our gene dysregulation analysis framework could be used to develop predictive signature with mechanistic interpretability for cancer precision medicine,and furthermore,elucidate the mechanisms of carcinogenesis. | Quanxue Li Wentao Dai jixiang Liu Qingqing Sang Yi-Xue Li Yuan-Yuan Li | 2020 | Journal of Molecular Cell Biology2020，12，11： | 0 |
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