Search results for Encode Project

Garbage Goodbye: In Blow to Junk RNA, “Majority” of Transcription Not “Background Noise”

A 2026 paper reports on an AI trained on genomic data, including data from a 2024 paper, enabling it to predict when transcription would be initiated. Source

Decima predicts gene expression at single-cell resolution

RNA sequencing from more than 22 million cells trained a model that predicts cell-type-specific gene expression and noncoding variant...

Scientists Uncover Hidden Clues to the Origin of the Genetic Code

Clues to the genetic code’s origin may be hidden in tiny protein fragments, revealing a synchronized and highly structured path to life’s earliest molecular systems. Genes act as t...

Unveiling the True Worth of Biodiversity in the UK and Ireland

The Darwin Tree of Life Project: Transforming Biology and Boosting the UK Economy Through Genomic Science In a landmark collaboration uniting prominent institutions such as the Wel...

Multiomics, Deep Learning Decode Human Development

In a groundbreaking study poised to redefine our understanding of gene regulation, researchers have harnessed the power of multiomics and advanced deep learning to probe the intric...

An AI Trained on Fake Genomes Can Read the Geneology Written in Real Ones

Run an AI model across a human chromosome and what you get back looks like a seismograph readout: peaks and troughs, quiet stretches interrupted by jagged eruptions of ancient time...

New gene editing method inserts large DNA segments to rewrite genome chapters

A new prime assembly technique inserts DNA segments up to 11,000 base pairs into the genome, enabling correction of thousands of mutations at once.

AI Uncovers a Hidden “Grammar” in DNA Packaging

Researchers have discovered a new "organizational code" for the genome, showing that most DNA is partially accessible even when wrapped up.

ADNP regulates chromatin architecture and lineage fidelity during neural differentiation

by Phillip Wulfridge, Nathaniel Rell, John Doherty, Kuo-Chen Fang, Michelle Lee Lynskey, Kavitha Sarma Transition from a pluripotent to a differentiated cell state is accompanied...

New RNA interaction atlas expands understanding of gene regulation

RNA sequencing and new computational tools enabled construction of a large RNA interactome atlas linking RNA-binding proteins, RNA interactions, and gene regulation...

A Method in the Madness of “Degeneracy”: Here Is Another Genetic Code

The report from MIT doesn’t hesitate to call this a “newly discovered genetic code” or “alternate genetic code” with functional significance. Source

The Hidden Architects of Your DNA: How Water Molecules Drive Gene Transcription

Inside every cell in your body, right now, a molecular machine is threading its way along a strand of DNA and reading it. The enzyme is called RNA polymerase II, and it is perhaps...

A long-read RNA sequencing and polysome profiling framework reveals transposable element-driven transcript diversity

RNA sequencing reveals how transposable elements drive alternative splicing and alter translation in glioblastoma, generating diverse RNA isoforms linked to cancer progression...

Detecting Colinear Blocks and Evolution with MCScanX

In the ever-evolving landscape of genomic research, the detection of colinear blocks and the study of synteny have become critical for understanding the architecture and evolutiona...

Researchers capture an unprecedented view of gene transcription

RNA polymerase, the enzyme that synthesizes RNA from DNA during transcription, has been captured mid-reaction for the first time. The findings provide a universal blueprint for gen...

Ancient DNA Uncovers Widespread Selection in West Eurasia

Ancient DNA research has revolutionized our understanding of human population history, revealing intricate patterns of migration, admixture, and demographic change. However, the pr...

DNA Meets Electronics: Scientists Create Ultra-Low Power Memory Breakthrough

Scientists are finding ways to merge biology with electronics, unlocking new possibilities for data storage and computing. DNA carries the genetic instructions for all living thing...

Cell type annotation for scATAC-seq via DNA large language model and graph domain adaptation

by Yan Liu, Sheng Guan, He Yan, Long-Chen Shen, Ji-Peng Qiang, Guo Wei Single-cell ATAC-seq (scATAC-seq) enables the exploration of chromatin accessibility at single-cell resoluti...

Encoding performance of cortical neurons critically depends on their morphological and neurophysiological properties

by Omer Revah, Fred Wolf, Michael J. Gutnick, Andreas Neef Sixty years after the concept of population coding in neuronal networks was introduced, we still lack a comprehensive un...

Egypt Study Identifies Over 17 Million Previously Undocumented Genetic Variants

Egypt has identified more than 17 million previously undocumented genetic variants in its first large-scale genome study, according to findings from the Egypt Genome Project publis...

How DNA is powering the next generation of supercomputers

'Mobile' DNA elements may have expanded gene regulatory networks in brain development

Scientists have uncovered evidence supporting a mechanism in which transposable elements (TEs), once considered "non-functional" DNA, may have contributed to the evolution and expa...

longcallR – SNP calling, haplotype phasing and allele-specific analysis with long RNA-seq reads

RNA sequencing with long-read technology links genetic variants to transcript structure, uncovering allele-specific splicing and previously unannotated RNA events across human samp...

UMass Chan Scientists Pioneer Gene Editing Technology That Rewrites Entire Genome Chapters

Scientists at UMass Chan Medical School have pioneered a groundbreaking gene editing technology named “prime assembly,” which challenges the limitations of traditional genome editi...