Home Blog Page 15
LongBondEliminator

LongBondEliminator: A Novel Approach to Streamlining Molecular Dynamics Simulations

0
Scientists from Michigan State University have introduced the LongBondEliminator, a tool designed to detect and correct ring penetrations in molecular simulations. Ring penetrations is...
DeepBIO: An Automated Deep Learning Platform for High-Throughput Functional Analysis of Biological Sequences

Meet DeepBIO: An Automated Deep Learning Platform for High-Throughput Functional Analysis...

0
Scientists from China have developed DeepBIO, an automated and interpretable deep learning platform for high-throughput biological sequence functional analysis. The first-of-its-kind platform enables researchers...
NHGRI's Verkko Algorithm: An Advancement in Genome Assembly with Notable Limitations

NHGRI’s Verkko Algorithm: An Advancement in Genome Assembly with Notable Limitations

0
Substantial progress has been made in assembling the first complete human genome sequence by the Telomere-to-Telomere consortium. However, complex repetitions in diploid genomes are...
Single-Cell RNA Sequencing: State-of-the-Art Technology and Future Prospects

Single-Cell RNA Sequencing: State-of-the-Art Technology and Future Prospects

0
Single-cell RNA sequencing (scRNA-seq) has proved to be a powerful tool for deciphering the entire repertoire of transcripts in a single cell. Traditional sequencing...
Big Data Analytics Reveals New Causal Pathways in Alzheimer's Disease

Big Data Analytics Reveals New Causal Pathways in Alzheimer’s Disease

0
King's College London scientists examined biological samples from hundreds of participants in a European study. The researchers studied the biological data at different stages,...
Whole-Genome Population Genomics Made Easy with "PRAWNS": A Comprehensive Tool for Multiple-genome Analysis

Whole-Genome Population Genomics Made Easy with “PRAWNS”: A Comprehensive Tool for...

0
Scientists from the University of Maryland have developed PRAWNS, a scalable and efficient tool for multi-genome analysis. With the unprecedented number of complete and...
From healthy cell to cancerous growth: the alarming role of poisoned proteins in tumor formation

From healthy cell to cancerous growth: the alarming role of “poisoned”...

0
Researchers from Scripps Research and Japan have discovered how a protein's "poisoned" form can set off a chain of events promoting specific cancers' growth....
MinsePIE: A Machine Learning Algorithm to Predict Successful Insertion of Gene-Edited DNA Sequences in the Genome of a Cell

Meet MinsePIE: A ML Tool to Predict Successful Insertion of Gene-edited...

0
Scientists from the Wellcome Sanger Institute, Hinxton, UK, and the University of Tartu, Estonia, have developed a machine learning-based algorithm, MinsePIE, to predict prime...
Local Creek Holds Secret to Fighting Deadly Infections: Newly Discovered Virus Kills Resistant Bacteria

Local Creek Holds Secret to Fighting Deadly Infections: Newly Discovered Virus...

0
Scientists from the University of Southern Denmark have made an interesting discovery that may help in the fight against antibiotic-resistant bacteria. The research team...
Unlocking the Mystery of Cancer Cell Movement: Logic Gates Provide Answers

Unlocking the Mystery of Cancer Cell Movement: Logic Gates Provide Answers

0
Scientists from Purdue University unravel cell migration direction under the influence of environmental cues using a ternary logic gate system. Cells detect several environmental...
idpGAN: A New Era in Protein Conformational Ensemble Generation: The Role of Machine Learning

A New Era in Protein Conformational Ensemble Generation: The Role of...

0
The biological activity of a protein is determined not only by its static, three-dimensional structure but also by its dynamic characteristics, which form a...
m6Anet: A Multiple Instance Learning based Neural Network Model for RNA Modification Prediction

Meet m6Anet: A Multiple Instance Learning based Neural Network Model for...

0
Scientists from the Genome Institute of Singapore and A*STAR Singapore have developed a neural network-based method that implements a multi-instance learning framework, "m6Anet," to...
From Data to Diagnosis: Leveraging EHR Data to Identify Autism Within 30 Days using Machine Learning

From Data to Diagnosis: Leveraging EHR Data to Identify Autism within...

0
Autism Spectrum Disorder (ASD), also known as autism, is a global health issue affecting millions of children worldwide. According to the World Health Organization...
AlphaFold Coupled with other AI Tools Accelerates the Drug Discovery Process

AlphaFold Teams up with Other AI Tools to Accelerate the Drug...

0
Structure-based drug discovery (SBDD) is a standard method for identifying prospective medications for a target by leveraging its structural information. AlphaFold, a technique for...
Mystery of Unique Fingerprint Pattern Formation

Scientists Unlock the Mystery of Unique Fingerprint Pattern Formation

0
Scientists from Edinburgh have solved the mystery behind the formation and variation in fingerprint patterns. Fingerprints are complex patterns, unique to every individual, and...
The Fight Against Tuberculosis Takes a Major Step Forward: Scientists Find Flaws in Bacterium by Studying Ferredoxins

The Fight Against Tuberculosis Takes a Major Step Forward: Scientists Find...

0
Researchers from Skoltech, MIPT, the National Academy of Sciences of Belarus' Institute of Bioorganic Chemistry (IBOCH NAS), and the Russian Academy of Sciences' Institute...
Scientists Created a Pan-3D Genome of Soybean to Decipher Structural and Functional Differentiation

Scientists Created a Pan-3D Genome of Soybean to Decipher Structural and...

0
Scientists from China have recently performed pan-3D genome analysis for soybean genomes to investigate the interplay among 3D genomic variations, structural variations (SV) as...
Speech Analysis Meets Artificial Intelligence: The Promise of Deep Learning for Depression Detection

Speech Analysis Meets Artificial Intelligence: The Promise of Deep Learning for...

0
Scientists at Jinhua Advanced Research Institute and Harbin University of Science and Technology have developed a deep-learning algorithm that can identify depression through speech....
Overview of the protocol for design of peptide inhibitors of a target PPI

Generative Models for Peptide Design: Discovering Calcineurin Protein-protein Interactions Disruptors

0
All organisms depend on protein-protein interactions (PPIs) for cellular and biological activities. This paper introduces a novel method for building peptide binders for "undruggable"...
Discovering the Origin of Antibiotic Resistance through DNA Replication Protein Structure Analysis

Discovering the Origin of Antibiotic Resistance through DNA Replication Protein Structure...

0
Scientists from Barcelona have discovered a new hexameric protein structure for the RepB protein, which is involved in catalyzing replication initiation in Streptococcal plasmid...
POPDx overview: Rare Disease Prediction: Machine Learning Takes the Lead

The Future of Rare Disease Prediction: Machine Learning Takes the Lead

0
The POPDx model does not require extensive patient datasets, which makes it potentially useful for patients with rare diseases. The POPDx framework was created to...
Overview of reconstructed drugs and annotated drug enzymes present in AGORA2

AGORA2: The Key to Personalized Medicine through Genome-wide Metabolic Reconstruction of...

0
The digestive system is home to trillions of bacteria, which are very different in each person based on their gender, age, race, lifestyle, and...
In-depth Mapping of Protein Localizations in Whole Tissue using Micro-scaffold Assisted Spatial Proteomics (MASP)

In-depth Mapping of Protein Localizations in Whole Tissue Using Micro-scaffold Assisted Spatial...

0
Researchers from the Jun Qu lab at SUNY Buffalo, New York, have developed a revolutionary method for in-depth mapping of protein localization in whole...
Nutrient that Cancer Cells Crave

New Hope in the Fight Against Cancer: Scientists Discover Nutrient that...

0
Cancer is one of the prominent causes of death globally, and discovering new methods to prevent and cure it is important for public health....
Computational and experimental pipeline of RESP

Expediating the Discovery of Super Tight-Binding Antibodies with an AI Model...

0
Scientists from UCSD have devised an efficient AI-based pipeline, RESP, for identifying high-affinity antibodies. Typically, researchers would employ directed evolution to enable iterative mutagenesis...
AlphaFill: An AI Algorithm that Implants Ligands and Cofactors in AlphaFold Models

Meet AlphaFill: An AI Algorithm to Fill Missing Ligands and Cofactors...

0
According to Levinthal's paradox, each protein may adopt around 10300 distinct structures. We now know 3-D structures for about 98% of the human proteome...
DGNN-DDI: A Cutting-edge Tool for Drug-Drug Interaction Prediction using Dual Graph Neural Network

DGNN-DDI: A Cutting-edge Tool for Drug-Drug Interaction Prediction using Dual Graph...

0
Scientists from Shaanxi Normal University, China, developed a novel Drug-Drug-Interactions (DDI) prediction tool that implements a dual graph neural network architecture to incorporate chemical...
Connection Between Immune Response & Persistent Smell Loss Post-COVID-19

New Study Finds Connection Between Immune Response & Persistent Smell Loss...

0
Most SARS-CoV-2 patients experience anosmia, or a loss of smell, which can linger for months after recovery. According to olfactory epithelium samples taken from...
ZFDesign: A Universal Deep Learning Model for Zinc Finger Design Enabling Transcription Factor Reprogramming

Meet ZFDesign: A Universal Deep Learning Model for Zinc Finger Design...

0
Controlling gene expression by engineering Cys2His2 zinc finger (ZF) domains to bind particular target sequences in the genome has many therapeutic applications. However, due...
A Tabular Machine Learning Approach to Pan-cancer Tumor-only Variant Calling

Machine Learning in Oncology: A Tabular Machine Learning Approach to Pan-cancer...

0
Accurately identifying somatic mutations and differentiating them from germline variations is critical for precision oncology and precise tumor-mutational burden (TMB) computation. For this purpose,...
De novo protein generation with conditional language model ProGen

AI Proteins: Unlocking the Potential of Protein Generation from Scratch with...

0
Scientists from the University of California, San Francisco, have created an inventive AI system that can create entirely new enzymes from scratch. Even though...
Navigating the choice of informatics software and tools for lipidomics research. Providing a Lipidomics Tools Guide on LIPID MAPS.

Luminary for Lipidomics Research Applications: Guiding the Choice of Informatics Software...

0
There has been an increase in research in numerous areas of biology and medicine due to the development of mass spectrometry lipidomics. As a...
De Novo Drug Design Using Generative Deep Learning: The Role of Chemical Language Models with Molecular Structures and Bioactivity

De Novo Drug Design Using Generative Deep Learning: Implementing Chemical Language...

0
Chemical language models (CLMs) can be used to construct molecules with desired features. Textual representations of novel chemical structures, such as simplified molecular input...
protein structure and function characterization

ML meets Structural Bioinformatics: Novel Machine Learning Approaches Transforming Protein Research...

0
Scientists from University College London, UK, study the Machine Learning (ML) approaches that have successfully closed the ever-widening gap between large amounts of protein...
Drug-Targeted Genome Interactions with a New DNA Sequencing Method Chem-map

Discovering the Secrets of Drug-Targeted Genome Interactions with a New DNA...

0
Scientists from the University of Cambridge have introduced a cutting-edge DNA sequencing method that can precisely pinpoint the location and mechanism of small molecule...
Understanding of Viruses with Complete Reconstruction

Aston University Paves the Way for New Understanding of Viruses with...

0
Aston University scientists have made a groundbreaking discovery in the field of virology. They were able to create a 3D model of the virus...
Espresso

Meet “Espresso”: The Solution for Accurate Quantification of Transcript Isoforms in...

0
The Children's Hospital of Philadelphia (CHOP) scientists have created ESPRESSO, a new computational tool for analyzing RNA-seq data. ESPRESSO aims to improve the detection...
Federated Learning Deployed Across Hospitals to Train Deep Learning Models Securely

Revolutionizing Healthcare: Federated Learning Deployed Across Hospitals to Train Deep Learning...

0
Owkin, an AI biotech company, has successfully used federated learning (FL) for the first time to train deep learning models on histopathology data from...
Deep Learning and Radiomics: A Game-Changer for Identifying Glioblastoma and Brain Metastasis

Deep Learning and Radiomics: A Game-changer for Identifying Glioblastoma and Brain...

0
According to a recent study from Karl Landsteiner University of Health Sciences (KL Krems), using radiomics and deep learning algorithms can quickly and accurately...
ImageMol – A Powerful Self-supervised Image Representation Learning Framework for Accurate Prediction of Molecular Properties and Drug Targets

ImageMol – A Powerful Self-supervised Image Representation Learning Framework for Accurate...

0
Scientists from Case Western Reserve University, Cleveland, USA, developed a self-supervised image representation learning framework, "ImageMol," for predicting molecular properties and drug targets with...
BioNTech's Acquisition of InstaDeep Set to Revolutionize AI-Powered Drug Discovery, Design, and Development

BioNTech’s Acquisition of InstaDeep Set to Revolutionize AI-Powered Drug Discovery, Design,...

0
BioNTech, a leading biopharmaceutical company, has announced plans to fully acquire InstaDeep, an artificial intelligence company specializing in drug discovery, design, and development. This...
Phosphorylation-site motif tree of the human Ser/Thr kinome

Discovering the Secrets of the Human Kinome: An Atlas of Substrate...

0
Researchers from MIT have created a comprehensive map of over 300 protein kinases and their targets, with the goal of potentially discovering new cancer...
Lung Cancer's Immune Evasion Tactics

Uncovering Lung Cancer’s Immune Evasion Tactics: Groundbreaking Study Sheds Light on...

0
Lung cancer is one of the most common and deadly types of cancer worldwide, and the ability of cancer cells to evade the body's immune system poses a significant challenge in treating it. A team of Weill Cornell Medicine scientists recently made a significant breakthrough in understanding this process. They discovered a genetic signature that can predict patient survival and identified a key mechanism lung cancer cells use to avoid immune attacks. This groundbreaking discovery could hasten the development of treatments that can circumvent tumor defense mechanisms, increasing the chances of survival for lung cancer patients. The signaling pathway involving IRE1 and XBP1 is becoming increasingly recognized as a key player in cancer progression and immune system suppression in various...
SPICEMIX: A Machine Learning Approach for Improved Cell Identity Understanding

Meet SPICEMIX: A Machine Learning Approach for Improved Cell Identity Understanding

0
Scientists from Carnegie Mellon University developed SPICEMIX, a machine learning method that allows researchers to better understand the contribution of various spatial patterns to...
Digital Twins Unlock the Key to New Biomarker Discovery for Atherosclerosis

Digital Twins Unlock the Key to New Biomarker Discovery for Atherosclerosis

0
A recent study utilized digital twin technology to identify new markers for atherosclerotic coronary artery disease (ASCAD). The study was conducted by G3 Therapeutics,...
Predicting Drug Success: The Role of Computer Models in Determining Drug's Binding Affinity to Proteins

Predicting Drug Success: The Role of Computer Models in Determining Drug’s...

0
When it comes to developing new drugs, one of the most important considerations is how well a candidate drug will bind to its target...
The Human Protein Atlas: Database Maps Proteins that could Predict Cancer Types

Revolutionizing Cancer Detection: A New Database Maps Proteins that could Predict...

0
The ability to predict cancer has advanced with the recent release of a new database that includes information on cancer proteins and was developed...
Speeding Up Drug Design & Development: Harnessing the Power of Machine Learning

Speeding Up Drug Formulation Development: Harnessing the Power of Machine Learning

0
Scientists at the University of Toronto advanced drug formulation development by utilizing machine learning techniques to predict and guide the design of long-acting injectable...
CHESSBOARD: A Bayesian Approach to Identifying Cancer Subtypes through Unsupervised Detection of RNA Splicing

CHESSBOARD: A Bayesian Approach to Identifying Cancer Subtypes through Unsupervised Detection...

0
Finding cancer subtypes is a crucial first step in creating individualized care. In particular, RNA splicing change-based sub-typing has been encouraged by a number...
Unraveling the Mechanics of DNA: Scientists Decrypt the 'Mechanical Code'

Unraveling the Mechanics of DNA: Scientists Decrypt the ‘Mechanical Code’

0
The mechanical properties of DNA are affected by various processes, including local sequence and epigenetic modifications. It has been challenging to understand the relationship...

Must Read

D-I-TASSER Outperforms AlphaFold? A New Frontier in Protein Structure Modeling

D-I-TASSER Outperforms AlphaFold? A New Frontier in Protein Structure Modeling

0
The requirement and utility of conventional force field-based folding simulations have been called into question by the overwhelming success of deep learning techniques in...
Unlocking Biomolecular Secrets with AF3Score: A Leap Forward in Structural Evaluation

Unlocking Biomolecular Secrets with AF3Score: A Leap Forward in Structural Evaluation

0
Researchers from Changping Laboratory in Beijing introduced AF3Score, a novel adaptation of AlphaFold3 designed to evaluate biomolecular structures with unprecedented accuracy. This innovation addresses...
Overlapping Genes, Unfolding Insights: Synthetic Biology Meets AI

Overlapping Genes, Unfolding Insights: Synthetic Biology Meets AI

0
Given that the sharing of codon nucleotides dramatically reduces the size of protein sequences, viruses in nature often generate overlapping genes (OLG) in alternate...
PhysDock: A New Era in Protein-Ligand Docking with AI and Physics

PhysDock: A New Era in Protein-Ligand Docking with AI and Physics

0
In a breakthrough that could transform drug discovery, a team of researchers from ShanghaiTech University has introduced PhysDock, a novel AI-powered model designed to...
Advancing Enzyme Design: RFdiffusion2 Enables Atomic-Level Scaffold Generation

Advancing Enzyme Design: RFdiffusion2 Enables Atomic-Level Scaffold Generation

0
In de novo enzyme design, the functional groups surrounding reaction transition states are described in the optimal active site. There are drawbacks to the...