Gene Expression

AI | Bioinformatics | Deep Learning | Drug Discovery | Gene Expression | News | Paper Summary | Tools | Trending

Generating Hit-Like Molecules with Gx2Mol: A Deep Dive into Gene Expression and Drug Discovery
ByDeotima Chakraborty January 10, 2025October 22, 2026

Even though SMILES and molecular graphs have been used in earlier research, drug reactions in biological systems, such as genes and proteins, are frequently disregarded in the de novo production of hit-like compounds. In this study, scientists from Nagoya University and Kyushu Institute of Technology, Japan, provide Gx2Mol, a deep generative model that creates molecular…

Read More Generating Hit-Like Molecules with Gx2Mol: A Deep Dive into Gene Expression and Drug Discovery
AI | Bioinformatics | Gene Expression | Machine Learning | News | Trending

Turning Genes On and Off: AI-Designed DNA Switches Revolutionize Gene Regulation
ByNeermita Bhattacharya November 3, 2024October 22, 2026

In this day and age, artificial intelligence is everywhere; it’s omnipresent. It is utilized in healthcare, finance, entertainment, IoT, agriculture, marketing, cybersecurity, and so much more! In this article, we dive into the innovative ways researchers have found to integrate AI with genomics. The possibility of tuning the expression of certain genes in organisms has…

Read More Turning Genes On and Off: AI-Designed DNA Switches Revolutionize Gene Regulation
AI | Bioinformatics | Disease Diagnosis | Gene Expression | News | Paper Summary | Precision Medicine | Trending

AI-Powered Digital Nucleic Acid Amplification Testing: Transforming Precision Medicine and Molecular Diagnostics
ByDeotima Chakraborty August 5, 2024October 22, 2026

A major component of the expanding significance of precise nucleic acid quantification in molecular biology is its emphasis on the field’s application in genomic research and infectious disease diagnosis. This review looks at recent developments in digital loop-mediated isothermal amplification (dLAMP) and digital polymerase chain reaction (dPCR), which provide improved sensitivity and absolute quantification, respectively,…

Read More AI-Powered Digital Nucleic Acid Amplification Testing: Transforming Precision Medicine and Molecular Diagnostics
Bioinformatics | Gene Expression | News | Paper Summary | RNA | RNA-Seq

Decoding Diversity: How Ethnicity Shapes Our Immune System
ByAnchal Negi July 13, 2024October 22, 2026

A recent study led by researchers from A*STAR explores the interplay between race and the function of the cell. Researchers used healthy blood samples obtained from more than 600 donors across seven population groups in five Asian countries to create the world’s giant scRNA-seq reference atlas called the Asian Immune Diversity Atlas (AIDA). This variety…

Read More Decoding Diversity: How Ethnicity Shapes Our Immune System
AI | Bioinformatics | Cancer | Cancer Research | Disease Diagnosis | Gene Expression | LLM | News | Paper Summary | RNA | Tools | Trending

BulkRNABert: A New Weapon in the Fight Against Cancer – How AI Reads Genes for Better Prognosis
ByAnchal Negi July 2, 2024October 22, 2026

Recent pioneering research by Université Paris-Saclay and Instadeep scientists has introduced a new technique, BulkRNABert. This method exploits a language model, an artificial intelligence (AI) that understands complex patterns to analyze bulk RNA-sequencing (RNA-seq) data to improve cancer prognosis. By diving into the symphony of gene activity in a tumor, BulkRNABert provides an exciting new…

Read More BulkRNABert: A New Weapon in the Fight Against Cancer – How AI Reads Genes for Better Prognosis
Bioinformatics | Data Analysis | Gene Expression | News | Paper Summary | RNA-Seq | Tools | Transcriptomics | Trending

MultiRNAflow: A Comprehensive Tool for Temporal RNA-seq Data Analysis in Multiple Biological Conditions
ByDeotima Chakraborty June 7, 2024October 22, 2026

RNA sequencing is currently a useful tool for studying the dynamic transcriptional mechanisms that control the operation of eukaryotic cells. Nevertheless, complicated experimental designs with various biological variables and multiple analysis time points cannot be automatically analyzed by the tools that are currently on the market for the analysis of raw sequencing data. Multiple programs…

Read More MultiRNAflow: A Comprehensive Tool for Temporal RNA-seq Data Analysis in Multiple Biological Conditions
AI | Bioinformatics | Education | Gene Expression | RNA-Seq | Tools | Transcriptomics | Trending

Exploring the World of Transcriptomics: Techniques, Algorithms, and Tools
ByAnchal Negi May 20, 2024October 22, 2026

Transcriptomics has emerged as a powerful tool in modern biology; it deals with the study of the entire set of RNA transcripts produced by the genome at a specific stage or under certain conditions. This field has revolutionized our understanding of gene expression patterns, enabling researchers to unravel the intricate mechanisms governing cellular processes, disease pathways, and organismal…

Read More Exploring the World of Transcriptomics: Techniques, Algorithms, and Tools
AI | Bioinformatics | Gene Expression | Machine Learning | News | OMICS | Paper Summary | Tools | Trending

Faster, More Accurate Spatial Omics: How BANKSY Streamlines Data Analysis
ByAnchal Negi May 14, 2024October 22, 2026

Spatial omics involve scientists generating maps of gene expression within tissues as they continue to evolve. This is an extremely important development with significant implications for understanding complex biological processes like disease, development, or response to treatment. However, unlocking these secrets depends on our ability to effectively analyze this data. This is what brings BANKSY…

Read More Faster, More Accurate Spatial Omics: How BANKSY Streamlines Data Analysis
Bioinformatics | Gene Expression | Genomics | News | Paper Summary | Sequencing | Trending

Did Aquatic Algae Pave the Way for Lush Forests? New Research Suggests Yes!
ByAnchal Negi May 8, 2024October 22, 2026

Have you ever wondered how those dense jungles and tall trees appear? It began with a leap from the water, a colonization attempt by our plant forebears more than 550 million years ago. But how could these marine organisms have acquired the necessary adaptations for living in such an arid environment? — A recent publication…

Read More Did Aquatic Algae Pave the Way for Lush Forests? New Research Suggests Yes!
AI | Bioinformatics | Gene Expression | Genomics | News | Paper Summary | Trending

From Genome to Function: AI Predicts Gene Regulation in Newly Sequenced Plants
ByAnshika Gupta May 3, 2024October 22, 2026

A recent study published in Nature Communications explored the relationship between gene expression prediction and the use of deep learning models, which are the most advanced models or architectures in the domain of machine learning. Fritz Forbang Peleke and Jędrzej Szymański head the group to uncover the role of non-coding regulatory elements in gene expression…

Read More From Genome to Function: AI Predicts Gene Regulation in Newly Sequenced Plants
AI | Big Data | Bioinformatics | Computational Models | Gene Expression | Genomics | Machine Learning | News | OMICS | Paper Summary | RNA-Seq | Tools | Trending

Decoding the Regulatory Landscape with LINGER: A New Era in Gene Regulatory Networks Inference
ByDeotima Chakraborty April 27, 2024October 22, 2026

Despite the difficulties presented by the current methods depending solely on gene expression data, RNA sequencing data has been incorporated into Gene regulatory networks (GRN) inference methods, improving the capacity to learn complicated pathways from a few independent data points. Here, scientists offer LINGER (Lifelong neural network for gene regulation), a machine-learning technique that uses…

Read More Decoding the Regulatory Landscape with LINGER: A New Era in Gene Regulatory Networks Inference
Bioinformatics | Gene Expression | News | Paper Summary | RNA-Seq | Trending

Untangling the Cellular Family Tree: GEMLI Estimates Lineage from scRNA-seq Data
ByAnchal Negi April 18, 2024October 22, 2026

Researchers from the Institute of Bioengineering, Lausanne, Switzerland, introduce GEMLI, a powerful computational tool that enables robust identification of cell lineages solely from scRNA-seq data. By leveraging gene expression memory, GEMLI unveils heritable patterns, cell fate decisions, and multicellular structures, shedding new light on processes like cancer invasiveness. Introduction What if you have to take…

Read More Untangling the Cellular Family Tree: GEMLI Estimates Lineage from scRNA-seq Data
AI | Bioinformatics | Gene Expression | Genomics | News | Paper Summary | Sequencing | Trending

Unraveling Genetic Mysteries with Proformer: A Hybrid Macaron Transformer Model
ByDeotima Chakraborty March 4, 2024October 22, 2026

The ability to comprehensively decode the cis-regulatory logic that controls the expression values is made possible by the revolutionary high-throughput measurement of the cis-regulatory activity of millions of randomly produced promoters. Researchers from the University of Minnesota developed an end-to-end transformer encoder architecture called Performer to predict the expression values from DNA sequences. Proformer is…

Read More Unraveling Genetic Mysteries with Proformer: A Hybrid Macaron Transformer Model
AI | Bioinformatics | Data Analysis | Gene Expression | Genomics | LLM | News | Paper Summary | Tools | Trending

Team of AI-made Scientists: A Groundbreaking System for Automating Scientific Discovery
ByAnchal Negi February 26, 2024October 22, 2026

Scientists from the University of Illinois, in collaboration with experts in the field, have unveiled a cutting-edge system named the “Team of AI-made Scientists.” This revolutionary development harnesses the power of large language models, effectively mimicking the capabilities of human data scientists to automate intricate analyses, such as the identification of disease genes. The research represents…

Read More Team of AI-made Scientists: A Groundbreaking System for Automating Scientific Discovery
AI | Bioinformatics | Deep Learning | Gene Expression | Genomics | News | Paper Summary | Trending

Unlocking the Enhancer Code: Deep Learning’s Role in Designing Cell-specific Genetic Switches
ByAnchal Negi February 4, 2024October 22, 2026

Transcriptional enhancers control the spatiotemporal activation of the target genes they regulate by serving as docking stations for various transcription factor combinations. It has been a long goal to Decipher the regulatory logic of an enhancer and comprehend the specifics of how spatiotemporal gene expression is encoded in an enhancer sequence. Researchers from VIB Center…

Read More Unlocking the Enhancer Code: Deep Learning’s Role in Designing Cell-specific Genetic Switches
Bioinformatics | Database | Drug Discovery | Gene Expression | Genomics | News | Paper Summary | Tools | Trending

Cracking the Code of Complex Diseases: Utilizing FORGEdb to Identify Functional Variants and Decipher Disease Mechanisms
ByDeotima Chakraborty January 9, 2024January 9, 2024

A majority of variations linked to disease that have been found by genome-wide association studies are not found in areas that code for proteins. It can be difficult to prioritize putative biological mechanisms for additional functional trials by identifying candidate regulatory variations and gene targets. In order to overcome this difficulty, scientists from the National…

Read More Cracking the Code of Complex Diseases: Utilizing FORGEdb to Identify Functional Variants and Decipher Disease Mechanisms
Bioinformatics | Gene Expression | News | Paper Summary | Sequencing | Trending

ChIP-DIP Multiplexing Method Maps Hundreds of Proteins to DNA Decoding Gene Expression Regulation
ByDeotima Chakraborty December 30, 2023January 4, 2024

The dynamic localization of thousands of unique regulatory proteins to specific DNA sequences regulates the expression of genes. It has been a longstanding objective of molecular biology to comprehend this cell-type specific mechanism. However, it is still difficult because the majority of DNA-protein mapping techniques only look at one protein at a time. A study…

Read More ChIP-DIP Multiplexing Method Maps Hundreds of Proteins to DNA Decoding Gene Expression Regulation
Bioinformatics | Cancer | Gene Expression | Genomics | Health | News | Precision Medicine | Trending

Genetic Insights for a Longer Life: Exploring Actionable Genotype Testing
ByDr. Tamanna Anwar December 24, 2023January 4, 2024

A new study from deCODE genetics on actionable genotypes shows the potential of genetics to guide healthcare and improve outcomes. The research, published in the New England Journal of Medicine, screened the genomes of nearly 58,000 Icelanders for disease-linked variants. The results suggest that disease-causing gene variants (actionable genotypes) can significantly reduce lifespan by at least three years…

Read More Genetic Insights for a Longer Life: Exploring Actionable Genotype Testing
Big Data | Bioinformatics | Gene Expression | News | Paper Summary | RNA-Seq | Transcriptomics | Trending

Navigating the Complex Transcriptomic Landscape of Neurodegeneration with ZEBRA
ByDr. Tamanna Anwar November 14, 2023November 14, 2023

Neurodegenerative diseases like Alzheimer’s and Parkinson’s remain poorly understood despite intensive research. While sequencing studies have profiled diverse brain cell populations, integrating findings into a coherent framework is challenging. To overcome this, researchers from Saarland University, Germany, developed ZEBRA – an expansive database of single-cell and single-nucleus RNA sequencing studies focused on illuminating the molecular underpinnings…

Read More Navigating the Complex Transcriptomic Landscape of Neurodegeneration with ZEBRA
Bioinformatics | Gene Expression | Genomics | GWAS | News | Paper Summary | Trending

MIT’s iPGS: A New Inclusive Polygenic Scoring Model Revolutionizes Disease Risk Assessment for Diverse Populations
BySwasti Tyagi November 11, 2023November 11, 2023

Massachusetts Institute of Technology (MIT) computer scientists developed iPGS, a model that gives accurate polygenic score calculations for the genetic makeup of individuals belonging to diverse ancestral backgrounds. Diversity in human beings can be attributed to the 0.1% of DNA that varies across individuals. It determines the phenotypes that would be expressed as well as…

Read More MIT’s iPGS: A New Inclusive Polygenic Scoring Model Revolutionizes Disease Risk Assessment for Diverse Populations
Bioinformatics | Cell | Gene Expression | News | Paper Summary | RNA-Seq | Transcriptomics | Trending

Tracking Gene Expression Changes in Single Cells over Time and Space with TEMPOmap
ByBanhita Maitra April 14, 2023December 28, 2023

Scientists from the Broad Institute of MIT and Harvard have developed TEMPOmap, a method that unravels subcellular RNA profiles spatiotemporally at the single-cell level. The method incorporates pulse-chase metabolic labeling and multiplexed-three dimensional in situ sequencing for simultaneous profiling of the age and location of individual RNAs. The authors discovered kinetic gene clusters while performing RNA kinetic…

Read More Tracking Gene Expression Changes in Single Cells over Time and Space with TEMPOmap
Bioinformatics | COVID-19 | Covid-19 News | Drug Discovery | Gene Expression | News | NGS | Paper Summary | RNA-Seq | SARS-CoV-2 | Trending

New Study Finds Connection Between Immune Response & Persistent Smell Loss Post-COVID-19
BySejal Saxena January 31, 2023January 31, 2023

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 24 biopsies, T cell-mediated inflammation continues in the olfactory epithelium even after SARS-CoV-2 has been removed from the tissue, indicating a mechanism for long-term post-COVID-19 smell loss. The severe acute respiratory…

Read More New Study Finds Connection Between Immune Response & Persistent Smell Loss Post-COVID-19
AI | Big Data | Bioinformatics | Computational Models | Gene Expression | Genomics | News | OMICS | Tools | Transcriptomics | Trending

Meet SPICEMIX: A Machine Learning Approach for Improved Cell Identity Understanding
ByDr. Tamanna Anwar January 15, 2023January 15, 2023

Scientists from Carnegie Mellon University developed SPICEMIX, a machine learning method that allows researchers to better understand the contribution of various spatial patterns to gene expression in complex tissues such as the brain. The study reporting the SPICEMIX method was featured as the main story in the latest edition of Nature Genetics. Genes that are activated…

Read More Meet SPICEMIX: A Machine Learning Approach for Improved Cell Identity Understanding
Bioinformatics | COVID-19 | Drug Discovery | Gene Expression | Genomics | GWAS | Machine Learning | News | OMICS | Paper Summary | Trending

Transcriptome-Wide Association Studies Integrated with 3D Genomic and Epigenomic Data used to Improve Target Gene Discovery and Drug Repurposing
ByTanveen Kaur June 13, 2022October 22, 2026

Scientists from Pennsylvania State University integrated 3D genomic and epigenomic data with transcriptome-wide association studies data to improve gene expression predictions. The researchers propose an integrative method PUMICE that integrates 3D genomic and epigenomic data with expression quantitative trait loci (eQTL) to predict gene expressions more accurately. An extension of the method PUMICE +, also combines transcriptome-wide…

Read More Transcriptome-Wide Association Studies Integrated with 3D Genomic and Epigenomic Data used to Improve Target Gene Discovery and Drug Repurposing
Bioinformatics | Cancer Research | Computational Models | Gene Expression | Machine Learning | News | OMICS | Paper Summary | Trending

Scientists Develop a Machine Learning-Based Framework to Identify Shared and Disease-Specific Host Gene-Microbiome Associations Across Human Diseases
ByTanveen Kaur May 20, 2022December 28, 2022

Scientists from the University of Minnesota, Minneapolis, USA, with their collaborators, developed a machine learning framework for a multi-omic integration to identify the shared and disease-specific host gene microbiome associations across human diseases. They identified the associations between gut microorganisms and host genes that portray shared as well as disease explicit patterns. While gut microbiome…

Read More Scientists Develop a Machine Learning-Based Framework to Identify Shared and Disease-Specific Host Gene-Microbiome Associations Across Human Diseases
Bioinformatics | Gene Expression | News | NGS | RNA-Seq | Sequencing

Scientists Discovered ‘Junk DNA’ as the Key to Controlling Fear
ByDr. Tamanna Anwar March 29, 2022June 18, 2022

Scientists from the University of Queensland found, a bit of “junk DNA” could be the key to eradicating fear-related memories in persons suffering from post-traumatic stress disorder (PTSD) and phobia. While researching how the genome responds to traumatic experiences, an international research effort led by Associate Professor Dr. Timothy Bredy of the Queensland Brain Institute…

Read More Scientists Discovered ‘Junk DNA’ as the Key to Controlling Fear
Bioinformatics | Gene Expression | Machine Learning | News | RNA-Seq | Trending

Pregnancy Health and Preeclampsia Prediction Using RNA Sequencing from a Single Blood Sample
ByDr. Tamanna Anwar January 11, 2022June 18, 2022

Using cell-free RNA (cfRNA), researchers discovered gene expression patterns linked to a healthy pregnancy. Conception to birth is a fast-paced period of growth and development that necessitates significant changes in maternal physiology that are currently unknown. Due to ethical limitations, research into human pregnancy is limited, and existing animal models are of little utility. Pre-eclampsia…

Read More Pregnancy Health and Preeclampsia Prediction Using RNA Sequencing from a Single Blood Sample

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Gene Expression

Decoding Diversity: How Ethnicity Shapes Our Immune System

Scientists Discovered ‘Junk DNA’ as the Key to Controlling Fear

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