Multiplex gene quantification as digital markers for extremely rapid evaluation of chemo-drug sensitivity
| Autor: | Yifan Cheng, Yilin Feng, Shaohua Ma, Jiaqi Fan, Zitian Wang, Shuzhong Cui, Haoran Zhao, Edgar A. Galan, Weijie Zhang, Quanxing Liao |
|---|---|
| Rok vydání: | 2021 |
| Předmět: |
Drug
multiplex gene quantification Receiver operating characteristic Computer science media_common.quotation_subject Cancer drugs Cancer type General Decision Sciences Computational biology digital marker Article extremely rapid evaluation chemo-drug Multiplex Sensitivity (control systems) personalized cancer medicine Gene media_common |
| Zdroj: | Patterns |
| ISSN: | 2666-3899 |
| Popis: | Summary Current administrations for precision drug uses are limited in evaluation speed. Here, we propose the use of multiplex gene-based digital markers for the extremely rapid personalized prediction of individual sensitivity to cancer drugs. We first screen the transcriptional profiles by applying two to three gene filters and scoring genes by their impact on drug sensitivity and finalize the gene lists by K-nearest neighbors cross-validation. The digital markers are cancer type dependent, are composed of tens to hundreds of gene expressions, and are rapidly quantified by reverse transcription quantitative real-time PCR (qRT-PCR) within 1–3 h after tumor sampling. The area under the receiver operating characteristic curve reached 0.88 when testing the performance of digital markers on organoids derived from colorectal cancer patient tumors. The algorithm and corresponding graphic user interface were developed to demonstrate the promise of digital markers for extremely rapid drug recommendation. Graphical abstract Highlights • Non-targeted multiplex genes are screened as digital markers for drug sensitivity • Transcription level cohort of 10s to 100s genes predicts drug sensitivity • Digital markers are quantified using qRT-PCR within 1–3 h • Digital markers guide extremely rapid chemo-drug uses after patient hospitalization The bigger picture In clinical cancer medicine, many patients require immediate chemotherapy after hospitalization. Current administrations for precision drug uses are limited in evaluation speed, including genomic sequencing and tumor organoid evaluation. An extremely rapid evaluation protocol is in high demand to realize drug recommendation within a few hours after tumor sampling. In this work, we have proposed an approach for extremely rapid and personalized drug recommendation. Fan et al. developed computational algorithms to establish multiplex digital markers that can evaluate chemotherapy drugs for personalized medicine. The evaluation is completed in up to 3 h and satisfies the needs for immediate chemotherapy after patient hospitalization. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|