Gene Expression

Bioinformatics | Genomics | News | NGS | OMICS | Paper Summary | Tools | Trending

Visualizing Omics Data Made Easy with DataColor’s 600+ Parameters
ByDeotima Chakraborty January 27, 2025October 22, 2026

The display of many types of data with different orders of magnitude is a critical challenge in the rapid development of high-throughput omics technologies. Researchers from Hainan University and Sun Yat-Sen University present DataColor, a comprehensive software solution that has been painstakingly developed to address this issue and to close this gap. DataColor is an…

Read More Visualizing Omics Data Made Easy with DataColor’s 600+ Parameters
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
Bioinformatics | Cancer Research | Genomics | News | OMICS | Paper Summary | Proteomics | Transcriptomics | Trending

Breaking Down Cancer Genomes: The Innovative Visualization Toolkit GenomeSpy
ByNeermita Bhattacharya August 19, 2024October 22, 2026

Trying to visualize available genomic data is of great interest. Currently, there exists a lot of specialized visualization tools, but most need to be tailored for a certain cause—the cost and labor increase since these applications need extensive programming done by bioinformaticians and software developers. Biological research is awash with large, complex, multilayered datasets that…

Read More Breaking Down Cancer Genomes: The Innovative Visualization Toolkit GenomeSpy
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
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
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
Bioinformatics | Cancer | Cell | News | Paper Summary | RNA-Seq | Trending

MIT’s Noninvasive Technique “Raman2RNA” Reveals Cells’ Gene Expression Dynamics Over Time
ByDeotima Chakraborty January 20, 2024January 20, 2024

Understanding cell dynamics, regulation, and characteristics has been revolutionized by profiling tests at a previously unheard-of resolution. Nevertheless, the destructive nature of these techniques makes it difficult to monitor the temporal dynamics of living cells. Although it lacks genetic and molecular interpretability, Raman microscopy offers a unique way to report vibrational energy levels at subcellular…

Read More MIT’s Noninvasive Technique “Raman2RNA” Reveals Cells’ Gene Expression Dynamics Over Time
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
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 | Genomics | News | NGS | RNA-Seq | Tools

Streamlining Differential Expression Analysis on Bulk RNA-seq Data with PyDESeq2
ByDr. Tamanna Anwar September 27, 2023September 25, 2023

Exploring bulk RNA-seq data has become a cornerstone for uncovering crucial insights into gene expression patterns and their relationship to phenotypes in biomedical research. One of the key tools in this domain is DESeq2, a powerful R package that has revolutionized differential expression analysis. However, a recent trend towards Python-based bioinformatics tools has highlighted the…

Read More Streamlining Differential Expression Analysis on Bulk RNA-seq Data with PyDESeq2
Bioinformatics | Cancer Research | Data Science | News | NGS | RNA-Seq | Trending

Scientists Developed a Versatile Pipeline ‘scAmpi’ for Single-cell RNA-seq Data Analysis from Basics to Clinics
ByTanveen Kaur August 17, 2022August 17, 2022

Scientists from the Swiss Institute of Bioinformatics devise a workflow known as Single Cell Analysis mRNA Pipeline, ‘scAmpi,’ for providing complete functionality to scRNA-seq data analysis. In order to understand tissue composition at the single-cell level, to shed light on disease processes, tumor heterogeneity, and the condition of the immune milieu, single-cell RNA sequencing (scRNA-seq) has…

Read More Scientists Developed a Versatile Pipeline ‘scAmpi’ for Single-cell RNA-seq Data Analysis from Basics to Clinics
Bioinformatics | News | NGS | RNA-Seq | Sequencing | Trending

TAS-Seq – A New Sensitive, and Powerful Single-Cell RNA Sequencing Technique Surpasses Competition
ByDr. Tamanna Anwar June 28, 2022June 28, 2022

The emergence of single-cell RNA sequencing (scRNA-seq) has now made it possible to analyze the internal workings of hundreds of cells at once, revolutionizing biology and medicine. However, the limitations of scRNA-seq methods include the potential for inaccurate cell composition analysis and the ineffectiveness of complementary DNA (cDNA) amplification, which is the process by which…

Read More TAS-Seq – A New Sensitive, and Powerful Single-Cell RNA Sequencing Technique Surpasses Competition
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
Biomedical Engineering | News | Tools | Trending

Scientists Engineered a New Tool to Precisely Switch Gene Expression ‘On’ and ‘Off’
ByDr. Tamanna Anwar May 5, 2022February 3, 2024

Scientists have developed a new approach for harnessing electrical signals to turn genes on and off. A team led by Imperial College London experts has created a new way for precisely altering gene expression by adding and withdrawing electrons. Experts from Imperial College’s Departments of Chemistry, Life Sciences, and Bioengineering, the Imperial College Translation &…

Read More Scientists Engineered a New Tool to Precisely Switch Gene Expression ‘On’ and ‘Off’
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
AI | Biotech | Featured | Trending

Predicting Gene Expression From DNA Sequence Using AI
ByDr. Tamanna Anwar January 2, 2022October 22, 2026

Interpreting gene expression from the DNA sequence is one of the most challenging problems in genome biology. Decoding DNA sequence with the help of “Artificial Intelligence” to predict phenotypes from molecular to organismal level is needed in the next phase of genome biology research. Google’s DeepMind in collaboration with Alphabet’s Calico have introduced neural network…

Read More Predicting Gene Expression From DNA Sequence Using AI

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Gene Expression

Decoding Diversity: How Ethnicity Shapes Our Immune System

Streamlining Differential Expression Analysis on Bulk RNA-seq Data with PyDESeq2

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