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• [UniProt Challenge] Amino acid binding / pocket signature Mutation 에는 mutational signature 라고 해서, 어떠한 muatation 생겼을 때 그 mutation 이 어디에서부터 유래한 것인지, 말하자면 mutation 의 origin을 유추할 수 있는 signature가 많이 공개되어 있음. COSMIC | Mutational Signatures (sanger.ac.uk) COSMIC | Mutational Signatures Mutational Signatures (v3.3 - June 2022) IntroductionSomatic mutations are present in all cells of the human body and occur throughout life. They are the consequence of multipl.. Resources/Personal Projects 2022. 9. 15.

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  [UniProt Challenge] PSSM : Binding residue representation Protein ligand-specific binding residue predictions by an ensemble classifier | BMC Bioinformatics | Full Text (biomedcentral.com) Protein ligand-specific binding residue predictions by an ensemble classifier - BMC Bioinformatics Background Prediction of ligand binding sites is important to elucidate protein functions and is helpful for drug design. Although much progress has been made, many cha.. Resources/Personal Projects 2022. 9. 15.

• 9월 3주차 Are You Using Feature Distributions to Detect Outliers? | by Hennie de Harder | Aug, 2022 | Towards Data Science Resources/Weekly reading list 2022. 9. 15.

• 9월 3주차 Sann: Solvent accessibility prediction of proteins by nearest neighbor method - Joo - 2012 - Proteins: Structure, Function, and Bioinformatics - Wiley Online Library SXGBsite: Prediction of Protein-Ligand Binding Sites Using Sequence Information and Extreme Gradient Boosting - PubMed (nih.gov) 이번 주 논문들 2022. 9. 15.

• 8월 5주차 Noninertial Frame Resources/Weekly reading list 2022. 9. 12.

• [Matplotlib] pdf 저장 시 text 를 수정가능하게 저장하는 방법 논문 피규어 작업을 할 때 , 일러스트레이터로 pdf 나 eps 파일을 불러와서 작업하는 경우가 많아서 파이썬에서도 plot 을 그렇게 저장해야 할 때가 있다. 이렇게 벡터화시켜서 저장하면 그림은 자유롭게 조정이 가능한데, 글자도 벡터화되어서 일러스트레이터 상에서 글자로 인식을 못하는 경우가 생기는데, 그럴 경우 matplotlib 옵션에서 이 옵션을 설정해주면 일러스트레이터 상에서도 글자로 조절가능하다. import matplotlib.pyplot as plt plt.rcParams['pdf.fonttype'] = 42 plt.rcParams['ps.fonttype'] = 42 데이터/Plotting 2022. 9. 8.

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  [6] Stratified K-fold 의 여러가지 방법 논문을 읽던 도중 실험 데이터에 적용할 수 있는 좋은 K-fold 방법이 소개된 피규어가 있어서 가져와 보았다. 논문은 Machine learning enables detection of early-stage colorectal cancer by whole-genome sequencing of plasma cell-free DNA | BMC Cancer | Full Text (biomedcentral.com) Machine learning enables detection of early-stage colorectal cancer by whole-genome sequencing of plasma cell-free DNA - BMC Can Background Blood-based methods using c.. 데이터/Data Manipulation 2022. 9. 6.

• 9월 2주차 Nested epistasis enhancer networks for robust genome regulation | Science Personalized microbiome-driven effects of non-nutritive sweeteners on human glucose tolerance: Cell Personalized microbiome-driven effects of non-nutritive sweeteners on human glucose tolerance A study of the effects of non-nutritive sweeteners on human metabolism as well as their microbiomes reveals how these can induce i.. 이번 주 논문들 2022. 9. 5.

• 9월 2주차 Applying Python multiprocessing in 2 lines of code | by Mike Huls | Geek Culture | Aug, 2022 | Medium Applying Python multiprocessing in 2 lines of code When and how to use multiple cores to execute many times faster! medium.com Autoencoder Average Distance — A Classical Way Used Internally at Microsoft To Find Out Similarity Between the Given Datasets | by VARUN KUKRETI | Aug, 2022 | Towards AI.. Resources/Weekly reading list 2022. 9. 5.

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  [UniProt Challenge] Protein representation vector to image DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture | Scientific Reports (nature.com) DeepInsight: A methodology to transform a non-image data to an image for convolution neural network architecture - Scientific Re It is critical, but difficult, to catch the small variation in genomic or other kinds of data that differentiates phenotyp.. Resources/Personal Projects 2022. 8. 29.

• 8월 4주차 IEEE Xplore Full-Text PDF: IEEE Xplore Full-Text PDF: ieeexplore.ieee.org Learning meaningful representations of protein sequences | Nature Communications Learning meaningful representations of protein sequences - Nature Communications www.nature.com Modeling aspects of the language of life through transfer-learning protein sequences | BMC Bioinformatics | Full Text (biomedcentral.com) Modeling .. 이번 주 논문들 2022. 8. 25.

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  Noninvasive Lung Cancer Early Detection via Deep Methylation Representation Learning Noninvasive Lung Cancer Early Detection via Deep Methylation Representation Learning | Proceedings of the AAAI Conference on Artificial Intelligence 2022, AAAI AnchorDx Medical 기존의 Methylation 을 이용한 cancer detection 방법은 tissue level 의 방법들이 많아서, cfDNA 에 적용하였을 때 discrepancy 가 많았음. 따라서 이 논문에서는 cfDNA ( blood ) -based 방법을 만들고자 함 Dataset : 450K ( Illumina ) microarray Number of samples : 424 ( Train :.. 논문 리뷰/Other topics 2022. 8. 24.