DNA storage is a new digital data storage technology based on specific encoding and decoding methods between 0 and 1 binary codes of digital data and A-T-C-G quaternary codes of DNAs,which and is expected to develop i...DNA storage is a new digital data storage technology based on specific encoding and decoding methods between 0 and 1 binary codes of digital data and A-T-C-G quaternary codes of DNAs,which and is expected to develop into a major data storage form in the future due to its advantages(such as high data density,long storage time,low energy consumption,convenience for carrying,concealed transportation and multiple encryptions).In this review,we mainly summarize the recent research advances of four main encoding and decoding methods of DNA storage technology:direct mapping method between 0 and 1 binary and A-T-C-G quaternary codes in early-stage,fountain code for higher logical storage density,inner and outer codes for random access DNA storage data,and CRISPR mediated in vivo DNA storage method.The first three encoding/decoding methods belong to in vitro DNA storage,representing the mainstream research and application in DNA storage.Their advantages and disadvantages are also reviewed:direct mapping method is easy and efficient,but has high error rate and low logical density;fountain code can achieve higher storage density without random access;inner and outer code has error-correction design to realize random access at the expense of logic density.This review provides important references and improved understanding of DNA storage methods.Development of efficient and accurate DNA storage encoding and decoding methods will play a very important and even decisive role in the transition of DNA storage from the laboratory to practical application,which may fundamentally change the information industry in the future.展开更多
Accurate prediction of peptide spectra is crucial for improving the efficiency and reliability of proteomic analysis,as well as for gaining insight into various biological processes.In this study,we introduce Deep MS ...Accurate prediction of peptide spectra is crucial for improving the efficiency and reliability of proteomic analysis,as well as for gaining insight into various biological processes.In this study,we introduce Deep MS Simulator(DMSS),a novel attention-based model tailored for forecasting theoretical spectra in mass spectrometry.DMSS has undergone rigorous validation through a series of experiments,consistently demonstrating superior performance compared to current methods in forecasting theoretical spectra.The superior ability of DMSS to distinguish extremely similar peptides highlights the potential application of incorporating our predicted intensity information into mass spectrometry search engines to enhance the accuracy of protein identification.These findings contribute to the advancement of proteomics analysis and highlight the potential of the DMSS as a valuable tool in the field.展开更多
基金supported by the National key research and development program(Grant No.2020YFA0907000)the National Natural Science Foundation of China(Grant No.31971389).
文摘DNA storage is a new digital data storage technology based on specific encoding and decoding methods between 0 and 1 binary codes of digital data and A-T-C-G quaternary codes of DNAs,which and is expected to develop into a major data storage form in the future due to its advantages(such as high data density,long storage time,low energy consumption,convenience for carrying,concealed transportation and multiple encryptions).In this review,we mainly summarize the recent research advances of four main encoding and decoding methods of DNA storage technology:direct mapping method between 0 and 1 binary and A-T-C-G quaternary codes in early-stage,fountain code for higher logical storage density,inner and outer codes for random access DNA storage data,and CRISPR mediated in vivo DNA storage method.The first three encoding/decoding methods belong to in vitro DNA storage,representing the mainstream research and application in DNA storage.Their advantages and disadvantages are also reviewed:direct mapping method is easy and efficient,but has high error rate and low logical density;fountain code can achieve higher storage density without random access;inner and outer code has error-correction design to realize random access at the expense of logic density.This review provides important references and improved understanding of DNA storage methods.Development of efficient and accurate DNA storage encoding and decoding methods will play a very important and even decisive role in the transition of DNA storage from the laboratory to practical application,which may fundamentally change the information industry in the future.
基金supported by the National Natural Science Foundation of China(Nos.62072435,82130055,32271297,and 32370657)the National Key Research and Development Program of China(No.2020YFA0907000).
文摘Accurate prediction of peptide spectra is crucial for improving the efficiency and reliability of proteomic analysis,as well as for gaining insight into various biological processes.In this study,we introduce Deep MS Simulator(DMSS),a novel attention-based model tailored for forecasting theoretical spectra in mass spectrometry.DMSS has undergone rigorous validation through a series of experiments,consistently demonstrating superior performance compared to current methods in forecasting theoretical spectra.The superior ability of DMSS to distinguish extremely similar peptides highlights the potential application of incorporating our predicted intensity information into mass spectrometry search engines to enhance the accuracy of protein identification.These findings contribute to the advancement of proteomics analysis and highlight the potential of the DMSS as a valuable tool in the field.
