Article

Deep flanking sequence engineering for efficient promoter design

2023-04-16

Abstract excerpt

Human experts are good at summarizing explicit strong patterns from small samples, while deep learning models can learn implicit weak patterns from big data. Biologists have traditionally described the sequence patterns of promoters via transcription factor binding sites (TFBSs), while the flanking sequences among TFBSs, which can also significantly influence promoter activity and function, remain largely uncharac...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 03d48cf9-1df7-582f-858f-8f40ad8982c5
DOI: 10.1101/2023.04.14.536502

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Deep flanking sequence engineering for efficient promoter designDOI 10.1101/2023.04.14.536502Read

DeepSTARR predicts enhancer activity from DNA sequence and enables the <i>de novo</i> design of enhancersSemantic proximity Read

Iterative deep learning-design of human enhancers exploits condensed sequence grammar to achieve cell type-specificitySemantic proximity Read

Predictive design of sigma factor-specific promoters.Semantic proximity Read

The regulatory grammar of human promoters uncovered by MPRA-trained deep learningSemantic proximity Read

High-Activity Enhancer Generation based on Feedback GAN with Domain Constraint and Curriculum LearningSemantic proximity Read

regLM: Designing realistic regulatory DNA with autoregressive language modelsSemantic proximity Read

Billion-Scale Deciphering of Human Gene Regulatory GrammarSemantic proximity Read

De novo promoters emerge more readily from random DNA than from genomic DNA.Semantic proximity Read

Strategies for effectively modelling promoter-driven gene expression using transfer learningSemantic proximity Read

Evaluation and optimization of sequence-based gene regulatory deep learning modelsSemantic proximity Read

Cell type directed design of synthetic enhancersSemantic proximity Read

Design of synthetic yeast promoters via tuning of nucleosome architecture.Semantic proximity Read