Post-translational modification (PTM) increases the functional diversity of proteins by introducing new functional groups to the side chain of amino acid of a protein. Among all amino acid residues, the side chain of ...Post-translational modification (PTM) increases the functional diversity of proteins by introducing new functional groups to the side chain of amino acid of a protein. Among all amino acid residues, the side chain of lysine (K) can undergo many types of PTM, called K-PTM, such as “acetylation”, “crotonylation”, “methylation” and “succinylation” and also responsible for occurring multiple PTM in the same lysine of a protein which leads to the requirement of multi-label PTM site identification. However, most of the existing computational methods have been established to predict various single-label PTM sites and a very few have been developed to solve multi-label issue which needs further improvement. Here, we have developed a computational tool termed mLysPTMpred to predict multi-label lysine PTM sites by 1) incorporating the sequence-coupled information into the general pseudo amino acid composition, 2) balancing the effect of skewed training dataset by Different Error Cost method, and 3) constructing a multi-label predictor using a combination of support vector machine (SVM). This predictor achieved 83.73% accuracy in predicting the multi-label PTM site of K-PTM types. Moreover, all the experimental results along with accuracy outperformed than the existing predictor iPTM-mLys. A user-friendly web server of mLysPTMpred is available at http://research.ru.ac.bd/mLysPTMpred/.展开更多
超大预训练模型(Pre-trained model,PTM)是人工智能领域近年来迅速崛起的研究方向,在自然语言处理(Natural language processing,NLP)和计算机视觉等多种任务中达到了有史以来的最佳性能,促进了人工智能生成内容(Artificial intelligenc...超大预训练模型(Pre-trained model,PTM)是人工智能领域近年来迅速崛起的研究方向,在自然语言处理(Natural language processing,NLP)和计算机视觉等多种任务中达到了有史以来的最佳性能,促进了人工智能生成内容(Artificial intelligence-generated content,AIGC)的发展和落地.ChatGPT作为当下最火热的PTM,更是以优异的表现获得各界的广泛关注.本文围绕ChatGPT展开.首先概括PTM的基本思想并对其发展历程进行梳理;接着,详细探讨ChatGPT的技术细节,并以平行智能的视角阐述ChatGPT;最后,从技术、范式以及应用等多个方面对PTM的发展趋势进行展望.展开更多
预训练模型(PTM)通过利用复杂的预训练目标和大量的模型参数,可以有效地获得无标记数据中的丰富知识。而在多模态中,PTM的发展还处于初期。根据具体模态的不同,将目前大多数的多模态PTM分为图像‒文本PTM和视频‒文本PTM;根据数据融合方...预训练模型(PTM)通过利用复杂的预训练目标和大量的模型参数,可以有效地获得无标记数据中的丰富知识。而在多模态中,PTM的发展还处于初期。根据具体模态的不同,将目前大多数的多模态PTM分为图像‒文本PTM和视频‒文本PTM;根据数据融合方式的不同,还可将多模态PTM分为单流模型和双流模型两类。首先,总结了常见的预训练任务和验证实验所使用的下游任务;接着,梳理了目前多模态预训练领域的常见模型,并用表格列出各个模型的下游任务以及模型的性能和实验数据比较;然后,介绍了M6(Multi-Modality to Multi-Modality Multitask Mega-transformer)模型、跨模态提示调优(CPT)模型、VideoBERT(Video Bidirectional Encoder Representations from Transformers)模型和AliceMind(Alibaba’s collection of encoder-decoders from Mind)模型在具体下游任务中的应用场景;最后,总结了多模态PTM相关工作面临的挑战以及未来可能的研究方向。展开更多
With the urgent demand for generalized deep models,many pre-trained big models are proposed,such as bidirectional encoder representations(BERT),vision transformer(ViT),generative pre-trained transformers(GPT),etc.Insp...With the urgent demand for generalized deep models,many pre-trained big models are proposed,such as bidirectional encoder representations(BERT),vision transformer(ViT),generative pre-trained transformers(GPT),etc.Inspired by the success of these models in single domains(like computer vision and natural language processing),the multi-modal pre-trained big models have also drawn more and more attention in recent years.In this work,we give a comprehensive survey of these models and hope this paper could provide new insights and helps fresh researchers to track the most cutting-edge works.Specifically,we firstly introduce the background of multi-modal pre-training by reviewing the conventional deep learning,pre-training works in natural language process,computer vision,and speech.Then,we introduce the task definition,key challenges,and advantages of multi-modal pre-training models(MM-PTMs),and discuss the MM-PTMs with a focus on data,objectives,network architectures,and knowledge enhanced pre-training.After that,we introduce the downstream tasks used for the validation of large-scale MM-PTMs,including generative,classification,and regression tasks.We also give visualization and analysis of the model parameters and results on representative downstream tasks.Finally,we point out possible research directions for this topic that may benefit future works.In addition,we maintain a continuously updated paper list for large-scale pre-trained multi-modal big models:https://github.com/wangxiao5791509/MultiModal_BigModels_Survey.展开更多
文摘Post-translational modification (PTM) increases the functional diversity of proteins by introducing new functional groups to the side chain of amino acid of a protein. Among all amino acid residues, the side chain of lysine (K) can undergo many types of PTM, called K-PTM, such as “acetylation”, “crotonylation”, “methylation” and “succinylation” and also responsible for occurring multiple PTM in the same lysine of a protein which leads to the requirement of multi-label PTM site identification. However, most of the existing computational methods have been established to predict various single-label PTM sites and a very few have been developed to solve multi-label issue which needs further improvement. Here, we have developed a computational tool termed mLysPTMpred to predict multi-label lysine PTM sites by 1) incorporating the sequence-coupled information into the general pseudo amino acid composition, 2) balancing the effect of skewed training dataset by Different Error Cost method, and 3) constructing a multi-label predictor using a combination of support vector machine (SVM). This predictor achieved 83.73% accuracy in predicting the multi-label PTM site of K-PTM types. Moreover, all the experimental results along with accuracy outperformed than the existing predictor iPTM-mLys. A user-friendly web server of mLysPTMpred is available at http://research.ru.ac.bd/mLysPTMpred/.
文摘预训练模型(PTM)通过利用复杂的预训练目标和大量的模型参数,可以有效地获得无标记数据中的丰富知识。而在多模态中,PTM的发展还处于初期。根据具体模态的不同,将目前大多数的多模态PTM分为图像‒文本PTM和视频‒文本PTM;根据数据融合方式的不同,还可将多模态PTM分为单流模型和双流模型两类。首先,总结了常见的预训练任务和验证实验所使用的下游任务;接着,梳理了目前多模态预训练领域的常见模型,并用表格列出各个模型的下游任务以及模型的性能和实验数据比较;然后,介绍了M6(Multi-Modality to Multi-Modality Multitask Mega-transformer)模型、跨模态提示调优(CPT)模型、VideoBERT(Video Bidirectional Encoder Representations from Transformers)模型和AliceMind(Alibaba’s collection of encoder-decoders from Mind)模型在具体下游任务中的应用场景;最后,总结了多模态PTM相关工作面临的挑战以及未来可能的研究方向。
基金supported by National Natural Science Foundation of China(Nos.61872256 and 62102205)Key-Area Research and Development Program of Guangdong Province,China(No.2021B0101400002)+1 种基金Peng Cheng Laboratory Key Research Project,China(No.PCL 2021A07)Multi-source Cross-platform Video Analysis and Understanding for Intelligent Perception in Smart City,China(No.U20B2052).
文摘With the urgent demand for generalized deep models,many pre-trained big models are proposed,such as bidirectional encoder representations(BERT),vision transformer(ViT),generative pre-trained transformers(GPT),etc.Inspired by the success of these models in single domains(like computer vision and natural language processing),the multi-modal pre-trained big models have also drawn more and more attention in recent years.In this work,we give a comprehensive survey of these models and hope this paper could provide new insights and helps fresh researchers to track the most cutting-edge works.Specifically,we firstly introduce the background of multi-modal pre-training by reviewing the conventional deep learning,pre-training works in natural language process,computer vision,and speech.Then,we introduce the task definition,key challenges,and advantages of multi-modal pre-training models(MM-PTMs),and discuss the MM-PTMs with a focus on data,objectives,network architectures,and knowledge enhanced pre-training.After that,we introduce the downstream tasks used for the validation of large-scale MM-PTMs,including generative,classification,and regression tasks.We also give visualization and analysis of the model parameters and results on representative downstream tasks.Finally,we point out possible research directions for this topic that may benefit future works.In addition,we maintain a continuously updated paper list for large-scale pre-trained multi-modal big models:https://github.com/wangxiao5791509/MultiModal_BigModels_Survey.
