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您的检索式：作者名="Beichen Zhao"
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| 1 | Distinct gene expression pattern of RUNX1 mutations coordinated by target repression and promoter hypermethylation in acute myeloid leukemia显示文摘Runt-related transcription factor 1(RUNX1)is an essential regulator of normal hematopoiesis.Its dysfunction,caused by either fusions or mutations,is frequently reported in acute myeloid leukemia(AML).However,RUNX1 mutations have been largely under-explored compared with RUNX1 fusions mainly due to their elusive genetic characteristics.Here,based on 1741 patients with AML,we report a unique expression pattern associated with RUNX1 mutations in AML.This expression pattern was coordinated by target repression and promoter hypermethylation.We first reanalyzed a joint AML cohort that consisted of three public cohorts and found that RUNX1 mutations were mainly distributed in the Runt domain and almost mutually exclusive with NPM1 mutations.Then,based on RNA-seq data from The Cancer Genome Atlas AML cohort,we developed a 300-gene signature that significantly distinguished the patients with RUNX1 mutations from those with other AML subtypes.Furthermore,we explored the mechanisms underlying this signature from the transcriptional and epigenetic levels.Using chromatin immunoprecipitation sequencing data,we found that RUNX1 target genes tended to be repressed in patients with RUNX1 mutations.Through the integration of DNA methylation array data,we illustrated that hypermethylation on the promoter regions of RUNX1-regulated genes also contributed to dysregulation in RUNX1-mutated AML.This study revealed the distinct gene expression pattern of RUNX1 mutations and the underlying mechanisms in AML development. | Jingming Li Wen Jin Yun Tan Beichen Wang Xiaoling Wang Ming Zhao Kankan Wang | 2022 | Frontiers of Medicine2022，16，4： | 0 |
| 2 | AI-assisted food enzymes design and engineering:a critical review显示文摘Food enzymes are basic components used for food processing.Through catalysis,food enzymes can function as removing allergy,enriching absorbable nutrients,improving food texture,and adjusting flavors.Food enzymes work in various conditions,which brought out the need for engineering these enzymes with harsh environment tolerance and higher catalytic efficiency.Artificial intelligence(AI)has recently provided solutions for structural modeling,finding modification hot spots,and guiding mutations toward specific needs,which greatly benefit enzyme engineering.AI-based tools showed great advantages in cutting down the computational time,enabling higher prediction accuracy,and providing trainable models suited for wide uses.In this review,we describe the functions and uses of food enzymes,as well as their utility limitations.The necessity and advantages of using AI-based tools in enzyme engineering,and the differences between using traditional and AI-based tools are mainly discussed.Few AI-based tools for enzyme engineering were introduced and described their function.The perspective of using AI tools and the future challenges were discussed. | Xinglong Wang Penghui Yang Beichen Zhao Song Liu | 2023 | Systems Microbiology and Biomanufacturing2023，3，1： | 0 |
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