ArticleCurrent genomics2009
Hidden Markov Models and their Applications in Biological Sequence Analysis.
Article in Current genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 121 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
121 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Here We Are, But Where Do We Go? A Systematic Review of Crustacean Transcriptomic Studies from 2014-2015.Integrative and comparative biology · 2016Pooled it
- The SLC-ome of membrane transport: from molecular discovery to physiology and clinical applications.Physiological reviews · 2026Review
- Evolution, Mechanisms, and Therapeutic Implications of Mobile Tetracycline Destructases.BioEssays : news and reviews in molecular, cellular and developmental biology · 2026Review
- Gillespie-based simulation and inference for non-Markovian stochastic reaction networks.Briefings in bioinformatics · 2026Article
- Balanced DNA interpolation improves learning of genetic distance-informed embeddings in plants.PLoS computational biology · 2026Article
- Scanning transcriptomes for nonlinear, domain-level similarities using hmSEEKR.bioRxiv : the preprint server for biology · 2026Article
- Population and pangenome analyses uncover the evolutionary dynamics of the peroxidase gene family in barley.BMC genomics · 2026Article
- An Integrative Variant Scoring Function for Finding Novel Genes Associated with Ovarian and Thyroid Cancer.International journal of environmental research and public health · 2026Article
- CisBP-RNA: a web resource for eukaryotic RNA-binding proteins and their motifs.Nucleic acids research · 2026Article
- AI-based methods for the assessment of DNA damage and repair mechanisms.Frontiers in systems biology · 2026Review
- The hidden Markov model and its applications in bioinformatics analysis.Genes & diseases · 2026Review
- Early Sound-Based Meal Onset Detection Using Hidden Markov Models (HMMs).IEEE journal of translational engineering in health and medicine · 2026Article
- Joint Bayesian Hidden Markov Model With Subject-Specific Transitions for Wearable Sensor Data.Statistics in medicine · 2025Article
- Dynamics of multimorbidity patterns in older population across socioeconomic areas.Communications medicine · 2025Article
- In Silico Identification and Molecular Characterization ofAntibiotics (Basel, Switzerland) · 2025Article
- Whole genome sequencing reveals transcriptional and translational elements potentially regulating biotic and abiotic stress responses in cowpea.Scientific reports · 2025Article
- NLP-like deep learning aided in identification and validation of thiosulfinate tolerance clusters in diverse bacteria.mSphere · 2025Article
- Genomic Insights into Emerging Multidrug-ResistantAntibiotics (Basel, Switzerland) · 2025Article
- Exploring effector candidates in Rhynchosporium commune: insights into their expression dynamics during barley infection.Scientific reports · 2025Article
- The Environment-Dependent Regulatory Landscape of thebioRxiv : the preprint server for biology · 2025Article
61 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Hidden Markov models (HMMs) have been extensively used in biological sequence analysis. In this paper, we give a tutorial review of HMMs and their applications in a variety of problems in molecular biology. We especially focus on three types of HMMs: the profile-HMMs, pair-HMMs, and context-sensitive HMMs. We show how these HMMs can be used to solve various sequence analysis problems, such as pairwise and multiple sequence alignments, gene annotation, classification, similarity search, and many others.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.