AU2020290510A1 - Techniques for protein identification using machine learning and related systems and methods - Google Patents

Techniques for protein identification using machine learning and related systems and methods Download PDF

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Publication number
AU2020290510A1
AU2020290510A1 AU2020290510A AU2020290510A AU2020290510A1 AU 2020290510 A1 AU2020290510 A1 AU 2020290510A1 AU 2020290510 A AU2020290510 A AU 2020290510A AU 2020290510 A AU2020290510 A AU 2020290510A AU 2020290510 A1 AU2020290510 A1 AU 2020290510A1
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data
learning model
machine learning
amino acids
training
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Michael Meyer
Bradley Robert PARRY
Sabrina RASHID
Brian Reed
Zhizhuo ZHANG
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Quantum Si Inc
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Quantum Si Inc
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    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/20—Sequence assembly
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/04—Architecture, e.g. interconnection topology
    • G06N3/044—Recurrent networks, e.g. Hopfield networks
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/04—Architecture, e.g. interconnection topology
    • G06N3/044—Recurrent networks, e.g. Hopfield networks
    • G06N3/0442—Recurrent networks, e.g. Hopfield networks characterised by memory or gating, e.g. long short-term memory [LSTM] or gated recurrent units [GRU]
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/04—Architecture, e.g. interconnection topology
    • G06N3/045—Combinations of networks
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/04—Architecture, e.g. interconnection topology
    • G06N3/045—Combinations of networks
    • G06N3/0455—Auto-encoder networks; Encoder-decoder networks
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/04—Architecture, e.g. interconnection topology
    • G06N3/0464—Convolutional networks [CNN, ConvNet]
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/08—Learning methods
    • G06N3/088—Non-supervised learning, e.g. competitive learning
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/08—Learning methods
    • G06N3/0895—Weakly supervised learning, e.g. semi-supervised or self-supervised learning
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/08—Learning methods
    • G06N3/09—Supervised learning
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N7/00—Computing arrangements based on specific mathematical models
    • G06N7/01—Probabilistic graphical models, e.g. probabilistic networks
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/30—Unsupervised data analysis
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N3/00—Computing arrangements based on biological models
    • G06N3/02—Neural networks
    • G06N3/04—Architecture, e.g. interconnection topology
    • G06N3/048—Activation functions

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  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Theoretical Computer Science (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Data Mining & Analysis (AREA)
  • Software Systems (AREA)
  • Artificial Intelligence (AREA)
  • Evolutionary Computation (AREA)
  • General Physics & Mathematics (AREA)
  • Molecular Biology (AREA)
  • Computing Systems (AREA)
  • General Engineering & Computer Science (AREA)
  • Mathematical Physics (AREA)
  • Biomedical Technology (AREA)
  • Computational Linguistics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Evolutionary Biology (AREA)
  • Biotechnology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Physiology (AREA)
  • Databases & Information Systems (AREA)
  • Epidemiology (AREA)
  • Bioethics (AREA)
  • Public Health (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Algebra (AREA)
  • Computational Mathematics (AREA)
  • Mathematical Analysis (AREA)
  • Mathematical Optimization (AREA)
  • Pure & Applied Mathematics (AREA)
  • Probability & Statistics with Applications (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
AU2020290510A 2019-06-12 2020-06-12 Techniques for protein identification using machine learning and related systems and methods Abandoned AU2020290510A1 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201962860750P 2019-06-12 2019-06-12
US62/860,750 2019-06-12
PCT/US2020/037541 WO2020252345A1 (en) 2019-06-12 2020-06-12 Techniques for protein identification using machine learning and related systems and methods

Publications (1)

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AU2020290510A1 true AU2020290510A1 (en) 2022-02-03

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AU2020290510A Abandoned AU2020290510A1 (en) 2019-06-12 2020-06-12 Techniques for protein identification using machine learning and related systems and methods

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US (1) US20200395099A1 (https=)
EP (1) EP3966824A1 (https=)
JP (1) JP2022536343A (https=)
KR (1) KR20220019778A (https=)
CN (1) CN115989545A (https=)
AU (1) AU2020290510A1 (https=)
BR (1) BR112021024915A2 (https=)
CA (1) CA3142888A1 (https=)
MX (1) MX2021015347A (https=)
WO (1) WO2020252345A1 (https=)

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CN114929897A (zh) * 2019-10-28 2022-08-19 宽腾矽公司 制备用于多肽测序的富集样品的方法
JP7592737B2 (ja) 2020-03-06 2024-12-02 ボストンジーン コーポレイション 多重免疫蛍光イメージングを使用する組織特性の決定
WO2021236983A2 (en) 2020-05-20 2021-11-25 Quantum-Si Incorporated Methods and compositions for protein sequencing
CA3227592A1 (en) * 2021-09-22 2023-03-30 Gregory KAPP Methods and systems for determining polypeptide interactions
CN114118366B (zh) * 2021-11-15 2025-04-22 国网浙江省电力有限公司电力科学研究院 基于长短期记忆神经网络的生命体触电电流检测方法
CN114093415B (zh) * 2021-11-19 2022-06-03 中国科学院数学与系统科学研究院 肽段可检测性预测方法及系统
CN114456926A (zh) * 2022-03-15 2022-05-10 常州市环境科学研究院 一种可预测生长趋势的浮游植物自动培养装置及方法
US12587274B2 (en) 2023-03-28 2026-03-24 Quantum Generative Materials Llc Satellite optimization management system based on natural language input and artificial intelligence
WO2025057424A1 (ja) 2023-09-15 2025-03-20 富士通株式会社 情報処理プログラム，情報処理装置および情報処理方法
WO2025128525A1 (en) * 2023-12-11 2025-06-19 Research Development Foundation System and method for predicting microproteins
WO2025123211A1 (zh) * 2023-12-12 2025-06-19 深圳华大生命科学研究院 一种多肽分类器的构建与应用
WO2025123212A1 (zh) * 2023-12-12 2025-06-19 深圳华大生命科学研究院 一种基于目标检测模型的多肽信号提取方法
US12368503B2 (en) 2023-12-27 2025-07-22 Quantum Generative Materials Llc Intent-based satellite transmit management based on preexisting historical location and machine learning
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CN117744748B (zh) * 2024-02-20 2024-04-30 北京普译生物科技有限公司 一种神经网络模型训练、碱基识别方法及装置、电子设备

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Publication number Publication date
CA3142888A1 (en) 2020-12-17
WO2020252345A9 (en) 2022-02-10
BR112021024915A2 (pt) 2022-01-18
JP2022536343A (ja) 2022-08-15
CN115989545A (zh) 2023-04-18
KR20220019778A (ko) 2022-02-17
MX2021015347A (es) 2022-04-06
US20200395099A1 (en) 2020-12-17
WO2020252345A1 (en) 2020-12-17
EP3966824A1 (en) 2022-03-16

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