AIMC Topic: Transcription, Genetic
Clear Filters Showing 31 to 40 of 46 articles
Ontology application and use at the ENCODE DCC.
Database : the journal of biological databases and curation
Mar 16, 2015
The Encyclopedia of DNA elements (ENCODE) project is an ongoing collaborative effort to create a catalog of genomic annotations. To date, the project has generated over 4000 experiments across more than 350 cell lines and tissues using a wide array o...
Analysis of strand-specific RNA-seq data using machine learning reveals the structures of transcription units in Clostridium thermocellum.
Nucleic acids research
Mar 12, 2015
Identification of transcription units (TUs) encoded in a bacterial genome is essential to elucidation of transcriptional regulation of the organism. To gain a detailed understanding of the dynamically composed TU structures, we have used four strand-...
Deep learning reveals determinants of transcriptional infidelity at nucleotide resolution in the allopolyploid line by goldfish and common carp hybrids.
Briefings in bioinformatics
May 1, 2025
During DNA transcription, the central dogma states that DNA generates corresponding RNA sequences based on the principle of complementary base pairing. However, in the allopolyploid line by goldfish and common carp hybrids, there is a significant lev...
Predicting gene expression from histone marks using chromatin deep learning models depends on histone mark function, regulatory distance and cellular states.
Nucleic acids research
Feb 8, 2025
To understand the complex relationship between histone mark activity and gene expression, recent advances have used in silico predictions based on large-scale machine learning models. However, these approaches have omitted key contributing factors li...
Predicting transcriptional changes induced by molecules with MiTCP.
Briefings in bioinformatics
Nov 22, 2024
Studying the changes in cellular transcriptional profiles induced by small molecules can significantly advance our understanding of cellular state alterations and response mechanisms under chemical perturbations, which plays a crucial role in drug di...
DeepITEH: a deep learning framework for identifying tissue-specific eRNAs from the human genome.
Bioinformatics (Oxford, England)
Jun 1, 2023
MOTIVATION: Enhancers are vital cis-regulatory elements that regulate gene expression. Enhancer RNAs (eRNAs), a type of long noncoding RNAs, are transcribed from enhancer regions in the genome. The tissue-specific expression of eRNAs is crucial in th...
Bayesian Machine Learning Enables Identification of Transcriptional Network Disruptions Associated with Drug-Resistant Prostate Cancer.
Cancer research
Apr 14, 2023
UNLABELLED: Survival rates of patients with metastatic castration-resistant prostate cancer (mCRPC) are low due to lack of response or acquired resistance to available therapies, such as abiraterone (Abi). A better understanding of the underlying mol...
Proto-Oncogene Proteins c-myb
Androstenes
Transcription, Genetic
Repressor Proteins
Proto-Oncogene Proteins c-ets
Gene Expression Profiling
Gene Regulatory Networks
Bayes Theorem
Basic Helix-Loop-Helix Leucine Zipper Transcription Factors
Prostatic Neoplasms
Drug Resistance, Neoplasm
Machine Learning
Computer Simulation
Male
Humans
Representation learning of RNA velocity reveals robust cell transitions.
Proceedings of the National Academy of Sciences of the United States of America
Dec 7, 2021
RNA velocity is a promising technique for quantifying cellular transitions from single-cell transcriptome experiments and revealing transient cellular dynamics among a heterogeneous cell population. However, the cell transitions estimated from high-d...
iDHS-Deep: an integrated tool for predicting DNase I hypersensitive sites by deep neural network.
Briefings in bioinformatics
Sep 2, 2021
DNase I hypersensitive site (DHS) refers to the hypersensitive region of chromatin for the DNase I enzyme. It is an important part of the noncoding region and contains a variety of regulatory elements, such as promoter, enhancer, and transcription fa...
A transformer architecture based on BERT and 2D convolutional neural network to identify DNA enhancers from sequence information.
Briefings in bioinformatics
Sep 2, 2021
Recently, language representation models have drawn a lot of attention in the natural language processing field due to their remarkable results. Among them, bidirectional encoder representations from transformers (BERT) has proven to be a simple, yet...
Don't Miss the Future of Medicine
Join thousands of healthcare professionals staying informed about the latest AI breakthroughs in medicine. Get curated insights delivered to your inbox.
Subscribe NowPopular Topics
- Machine Learning 31984
- Neural Networks, Computer 30211
- Algorithms 27388
- Deep Learning 26888
- Artificial Intelligence 24826
- Robotics 13382
- Image Processing, Computer-Assisted 9732
- Retrospective Studies 9334
- Magnetic Resonance Imaging 6342
- Reproducibility of Results 5670
- Tomography, X-Ray Computed 4864
- Support Vector Machine 4766
- Computational Biology 4331
- Brain 4126
- Computer Simulation 3932
Recent Journals
- Scientific reports 6743
- Sensors (Basel, Switzerland) 4794
- PloS one 4196
- Neural networks : the official journal of the International Neural Network Society 3026
- Computational intelligence and neuroscience 1931
- Computers in biology and medicine 1916
- Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference 1686
- Studies in health technology and informatics 1378
- IEEE journal of biomedical and health informatics 1170
- Journal of chemical information and modeling 1064
- Nature communications 1039
- Computer methods and programs in biomedicine 883
- Bioinformatics (Oxford, England) 873
- Journal of medical Internet research 860
- Briefings in bioinformatics 853