Friday, December 9, 2022
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Overview of the full workflow and tools performed by TransFlow (Transmission Workflow).

TransFlow: a Fast and Efficient Snakemake Workflow for Whole Genome Sequencing...

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TransFlow (Transmission Workflow), a convenient, quick, effective, and thorough WGS-based transmission analysis pipeline, is presented by Chinese researchers. TransFlow integrates a number of cutting-edge...
Federated Machine Learning Powers the Biggest Brain Tumor Study to Date while Protecting Patient's Data

Federated Machine Learning Powers the Biggest Brain Tumor Study to Date...

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Federated machine learning enables the largest brain tumor study ever conducted without sharing patient data by allowing researchers to securely analyze distributed datasets while...
MIT Researchers Used Large Language Models to Decode Electronic Health Records.

MIT Researchers Used Large Language Models to Decode Clinical Health Records...

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Researchers from MIT CSAIL employed a potent deep-learning model to extract crucial information from electronic health records that might help with personalized medicine. The adoption...
Hidden Patterns Involved In Patients With Multimorbidities

UCL Researchers Unraveled the Hidden Patterns Involved in Patients with Multimorbidities

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Researchers at University College London discovered multimorbidity and comorbidity illness trends using a dataset spanning 3.8 million patients in England. Patients and clinicians can...
A multi omics approach to earth's microbiomes project

A Multi-Omics Approach to Earth’s Microbiomes Project Demonstrates Microbial and Metabolite...

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Contrasting sharply with the little knowledge of the microbial world's underlying structure is the rising awareness of its significance and variety. Despite recent developments...
GenSLM - A Genome-Level AI Model

Meet GenSLMs, A Genome-Level AI Model That Helps Track COVID Variants’...

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Argonne National Laboratory researchers, together with partners from six different universities, NVIDIA, and Cerebras Inc., have collaborated to create GenSLMs, that learn the evolutionary...
Amazon Omics - A Comprehensive Service for Storing, Querying, and Analyzing Genomic and Biological Big Data

Amazon’s Big Bet On Bioinformatics – Introduces Amazon OMICS – A...

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Amazon Omics is a purpose-built service from Amazon Web Services (AWS) that enables customers to store, query, and analyze genomic and biological data at...
Machine Learning Model DxFormer for Automated Disease Diagnosis

Scientists Develop a Machine Learning Model ‘DxFormer’ for Automated Disease Diagnosis

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Fudan University researchers introduced DxFormer, a new automatic diagnostic framework in which each symptom is regarded as a token, formalizing symptom inquiry and disease...
DNA methylation classes of sinonasal tumors

A New Machine Learning Algorithm Classifies Sinonasal Tumors Based on DNA...

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Scientists from Ludwig Maximilians University Hospital Munich, Germany have developed a new machine-learning method for classifying hard to diagnose sinonasal tumors. The DNA methylation...
Molecular Subsets Involved in Brain Metastases of Melanoma

Scientists Decipher the Molecular Subsets Involved in  Brain Metastases of Melanoma

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Researchers used a multi-OMICS technique and targeted sequencing (TargetSeq) to identify the processes that may govern the progression of brain metastases. Regardless of intracranial...
RNAlysis: RNA Sequencing Data Analysis for Less Computer-savvy Researchers

RNAlysis: a Gateway into RNA Sequencing Data Analysis for Less Computer-savvy...

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Qualitative data analysis, understanding patterns, finding possible targets/candidates, and intuitively displaying the results are among the crucially difficult aspects of next-generation sequencing experiments. These...
AlphaPeptDeep: a Deep Learning Framework for Predicting Peptide Properties

Meet AlphaPeptDeep: a Deep Learning Framework for Predicting Peptide Properties from...

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A research team led by Professor Matthias Mann from the Max Planck Institute of Biochemistry has developed AlphaPeptDeep. AlphaPeptDeep is a Python framework built...
ExpressionGAN: Generating Long Designer DNA Sequences On-Demand With Deep Learning

ExpressionGAN: Generating Long Designer DNA Sequences On-Demand With Deep Learning

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A new deep learning method developed by a team of researchers at Chalmers can generate regulatory DNA sequences that control gene expression in a...
Diagnosis of Neonatal Infectious Diseases Through Metagenomic Next-Generation Sequencing

Enhancing the Comprehensive Diagnosis of Neonatal Infectious Diseases Through Metagenomic Next-Generation...

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Scientists from Xi’an Children’s Hospital have shown that metagenomic next-generation sequencing (mNGS) of cell-free DNA (cfDNA) and RNA may help detect trace infections from...
Machine Learning Models to Predict Comorbidities at an Early Stage of Type 2 Diabetes Mellitus

Scientists Develop Novel Machine Learning Models to Predict Comorbidities at an...

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Researchers at AstraZeneca and Ono Pharmaceuticals sought to create a model that could predict the likelihood that individuals with Type 2 Diabetes Mellitus (T2DM)...
Constructing a High-Resolution Global Map of Clinically Relevant Antimicrobial Resistance Genes

Scientists Created a High-Resolution Global Map of Clinically Relevant Antimicrobial Resistance...

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Researchers from the University of Antwerp screened 17939 assembled metagenomic samples from 21 different biomes, varying in sequencing quality and depth, over 46 countries,...
UniverSC: A Multi-platform Universal scRNAseq Data Processing Pipeline

Multi-platform Universal Single-cell RNAseq Data Processing Pipeline – UniverSC

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Scientists at the Center for Integrative Medical Sciences Yokohama, Japan, designed a platform-independent application to run UniverSC, a wrapper for the 10X Genomics CellRanger program that...
Novel AI Blood Test 'DELFI' for Early Detection of Liver Cancer

Scientists Developed a Novel AI Blood Test ‘DELFI’ for Early Detection...

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Johns Hopkins Kimmel Cancer Center researchers developed and used artificial intelligence blood testing technology. The new blood testing technology detected liver cancer in more...
FASSO: An AlphaFold Based Method Combines Sequence and Structure Orthology to Assign Functional Annotations to Proteins

FASSO: An AlphaFold-based Method Combines Sequence and Structure Orthology to Assign...

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AlphaFold, a machine learning system developed by Google DeepMind, can predict the three-dimensional structures of proteins with unprecedented accuracy, leading to a better understanding...
Smartwatch ECG Signals Transformed into Diagnostic Tools for Heart Failure using Artificial Intelligence

Smartwatch ECG Signals Transformed into Diagnostic Tools for Heart Failure using...

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A new study published by researchers at the Mayo Clinic has shown that a smartwatch ECG can accurately detect heart failure in nonclinical environments....
Functional Connectivity MultiVariate Pattern Analysis (fc-MVPA)- A Novel Method for the Analysis of Human Connectome

Functional Connectivity MultiVariate Pattern Analysis – A Novel Method for the...

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In the article released in PLoS Computational Biology, researcher Alfonso Nieto-Castanon of Boston University describes a technique called fc-MVPA (functional connectivity Multivariate Pattern Analysis)....
A bioinformatics roadmap for drug prioritization from cancer genomics data.

A Bioinformatics Roadmap for Drug Prioritization from Cancer Genomics Data

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Cancer is a complicated disease brought on by the interaction of various informational layers. Tumor origin, the appearance of genomic and transcriptomic variations, or...
CLIMB - A New Statistical Method for Improved Large Scale Genomic Data Analysis

CLIMB – A New Statistical Method for Improved Large Scale Genomic...

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Researchers from Penn State University present CLIMB (Composite Likelihood eMpirical Bayes), a statistical tool that discovers patterns of condition specificity in a given genomic...
A deep learning platform OrganoID: analyzes and interprets the organoid models

Researchers Introduce a Deep Learning Platform ‘OrganoID’ to Track Single-organoid Dynamics...

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Recent research conducted by the research group of Savas Tay at the University of Chicago, Illinois, USA, introduced a deep learning platform, OrganoID to...
Deep Learning Framework Identifies Gene Gene Interactions

A Novel Deep Learning Framework Identifies Gene-Gene Interactions for a Given...

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A deep learning framework has been developed by researchers under the direction of Tianyu Cui, a Ph.D. student in the Department of Computer Science...
RNA-Structurome

Researchers Elucidated the Dynamic RNA Structurome and its Potential in Targeted...

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With a thorough potential of the Ribonucleic Acids (RNA) in cellular processes, the molecule is deemed more than just being transitionary and has emerged...
The first high-quality reference genome of the Nile rat, a promising model organism for diabetes.

Scientists Unveil High-Resolution Reference Genome of Nile Rat – A Promising...

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A research team led by Yury V. Bukhman from the Morgridge Institute for Research has put forth a reference genome with haplotype-resolved assemblies and...
CRISPR-CAS9-based technique investigates copy number alterations in cancer genomes

A Novel CRISPR-based Technique ‘MACHETE’ Investigates Copy Number Alterations in Cancer...

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The post-doctoral researchers from Memorial Sloan Kettering Cancer Centre (MSK) developed an upfront and coherent way to study copy number alterations (CNA) deletions in...
Screening Potential Public Health Threats

Multidimensional Semantic Scan – A Presyndromic Surveillance Approach For Screening Potential...

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Researchers from New York University, Carnegie Mellon University, and the New York City Health Department have joined forces to develop an automated machine-learning approach...
AF2 applications

An International Collaborative Effort Assessed The Applications Of AlphaFold2

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Teams of researchers across 18 institutes spread over 11 countries have worked together to assess the utility of AlphaFold2 (AF2) predictions in the analysis...
Proteo-genomic Profiling of Virus-associated Liver Cancer

Large-scale Proteo-genomic Profiling of Virus-associated Liver Cancer Unveils Potential Subtypes and...

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A large percentage of the global population is shown to have been affected by different types of cancer and increased mortality. Hepatocellular carcinoma, or...
Deep-SMOLM generates 5D images of proteins.

Meet Deep-SMOLM: A Machine Learning Algorithm for Generating 5D Images of...

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Deep-SMOLM is a deep-learning-based estimator created by Washington University in St. Louis researchers that blends machine learning, physical laws, and biological principles. At a...
A machine learning-based enzyme engineering.

Researchers Developed Machine Learning-Based Enzyme Engineering Approach by Integrating a Logistic...

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A recent study published in ACS Synthetic Biology has presented an analogous level of adaptability to enzymes. A team of researchers from Osaka University...
Deep Learning Algorithm Detects Head and Neck Cancer Better than Radiologists.

Deep Learning Algorithms – the Future of Medical Imaging?

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Research presented at the 2022 World Cancer Congress shows that deep learning algorithm outperformed radiologists in detecting head and neck cancer spread. The algorithm...

Researchers Develop a Computational Tool ‘CAMMiQ’ for Strain Level Microbial Detection...

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A recent study led under the supervision of Cenk Sahinalp et al. and conducted jointly at the National Institute of Health, UCSD, and Indiana...
Meta AI creates ESM Metagenomic Atlas, a repository of over 600 million predicted metagenomic protein structures, leaving behind alphafold db.

Meta AI Releases ESM Metagenomic Atlas: A Repository of Over 600 Million...

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An extensive protein database that reveals the structures of millions of metagenomic proteins has been created by researchers under the direction of Alex Rives...

A New Approach ‘HI-CNV’ Elucidates the Effects of Copy Number Variation...

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A team of researchers from the Broad Institute of MIT and Harvard, Brigham and Women's Hospital, and Harvard Medical School has demonstrated a computational...
PreAcrs Framework Identifies Anti-CRISPR Proteins From Amino Acid Sequence

Scientists Propose a Machine Learning-based Ensemble Framework ‘PreAcrs’ to Accurately and...

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A team of researchers led by Prof. Jiangning Song from Monash University, Australia, has developed a novel ML ensemble predictor named PreAcrs that can identify...
Virtual HER2 staining of unlabeled tissue sections via deep learning.

Researchers Introduced a Deep Learning-based Label-Free Virtual HER2 Immunohistochemical Staining of...

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Evident with the increasing cost and laborious work of diagnosis of cancer, using the gold standard Immunohistochemical (IHC) staining of tissues. Researchers from the...
Multimodal Data Fusion

Artificial Intelligence Strategies For Multimodal Fusion – A Path Towards Precision...

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Cancer is a significant threat worldwide. In a study published in ACS Cancer, authors Bray et al. stated that cancer may overtake cardiovascular disease...
Precily - A Deep Neural Network-based Cancer Drug Response Predictor

PRECILY – A Deep Neural Network-based Cancer Drug Response Predictor

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Researchers from IIIT-Delhi and the University of Queensland have partnered to create Precily, a deep neural network-based modeling approach to predict the responsiveness of...
Integrated Host-Microbe Plasma Metagenomics Profiling Accurately Predicts Sepsis

Accurate Sepsis Diagnosis using Integrated Host-Microbe Plasma Metagenomics Profiling

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Sepsis is a life-threatening condition damaging multiple organs at a time due to the host’s aberrant immune responses against infections. The current study supported...
AlphaFold and experimental density maps to rebuild protein models improves structure prediction accuracy.

Synergistic Protein Modeling Using AlphaFold and Density Maps Improves Structure Prediction...

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A team of researchers led by Thomas Terwilliger from the New Mexico Consortium developed a procedure where the AlphaFold structure prediction models can be...
Protecting Crops from Rice Blast Disease

Researchers Find Clues to Protecting Crops from Blast Disease by Gaining...

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Owing to the rise of global food insecurity, several initiatives have been made to understand the disease-causing plant pathogens and crop failure. Researchers from...
Stages of malaria

Data Dimensionality Reduction Promotes Stage-specific Malaria Detection Based on Neural Networks

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Owing to the increase in malaria infections and morbidities associated with it, an upgradation of diagnostics gold standard procedures can help elevate the disease...
A Novel Machine Learning Method for Classifying Macrophages

A Novel Machine Learning Method for Classifying Macrophages Could Facilitate the...

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Researchers from Trinity College Dublin have introduced a machine-learning model that classifies human macrophages based on cellular autofluorescence imaging of NAD(P)H. They have also...
Phylogenetic-tree-of-the-genus-Quinella-and-relatives

Genomic Insights into the Physiology of an Iconic Unculturable Rumen Bacterium...

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The iconic bacterial genus from sheep rumen ‘Quinella’ has been the center of bacterial taxonomy for various reasons. The research group from Massey University,...

Artificial Intelligence Accurately Predicts Patient’s Race from Medical Images – Can...

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According to the study by Prof. Judy Gichoya of Emory University, the standard deep learning models effectively predicted the patient's race using only diagnostic...
TF-peaks

Novel EEG Phenotyping to Identify Neurological Disease from Sleep Brainwaves

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Investigators from Brigham and Women’s Hospital developed a novel approach to identify time-frequency peaks from sleep brain waves revealing heterogeneity between both healthy and...
CODE-AE Predicts Personalized Cancer Drug Response Using Cell Line Data

Machine Learning Model ‘CODE-AE’ Predicts Personalized Cancer Drug Response Using Cell...

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A team of computer scientists from the City University of New York has created a novel framework named the context-aware deconfounding autoencoder, which is...

Must Read

Overview of the full workflow and tools performed by TransFlow (Transmission Workflow).

TransFlow: a Fast and Efficient Snakemake Workflow for Whole Genome Sequencing Based Transmission Analysis...

0
TransFlow (Transmission Workflow), a convenient, quick, effective, and thorough WGS-based transmission analysis pipeline, is presented by Chinese researchers. TransFlow integrates a number of cutting-edge...
Federated Machine Learning Powers the Biggest Brain Tumor Study to Date while Protecting Patient's Data

Federated Machine Learning Powers the Biggest Brain Tumor Study to Date while Protecting Patient’s...

0
Federated machine learning enables the largest brain tumor study ever conducted without sharing patient data by allowing researchers to securely analyze distributed datasets while...
MIT Researchers Used Large Language Models to Decode Electronic Health Records.

MIT Researchers Used Large Language Models to Decode Clinical Health Records in Few Shots

0
Researchers from MIT CSAIL employed a potent deep-learning model to extract crucial information from electronic health records that might help with personalized medicine. The adoption...
Hidden Patterns Involved In Patients With Multimorbidities

UCL Researchers Unraveled the Hidden Patterns Involved in Patients with Multimorbidities

0
Researchers at University College London discovered multimorbidity and comorbidity illness trends using a dataset spanning 3.8 million patients in England. Patients and clinicians can...
A multi omics approach to earth's microbiomes project

A Multi-Omics Approach to Earth’s Microbiomes Project Demonstrates Microbial and Metabolite Diversity

0
Contrasting sharply with the little knowledge of the microbial world's underlying structure is the rising awareness of its significance and variety. Despite recent developments...