Results 61 to 70 of about 5,099,016 (263)

Novel tools for conservation genomics: comparing two high-throughput approaches for SNP discovery in the transcriptome of the European hake. [PDF]

PLoS ONE, 2011
The growing accessibility to genomic resources using next-generation sequencing (NGS) technologies has revolutionized the application of molecular genetic tools to ecology and evolutionary studies in non-model organisms. Here we present the case study of
Ilaria Milano, Massimiliano Babbucci, Frank Panitz, Rob Ogden, Rasmus O Nielsen, Martin I Taylor, Sarah J Helyar, Gary R Carvalho, Montserrat Espiñeira, Miroslava Atanassova, Fausto Tinti, Gregory E Maes, Tomaso Patarnello, FishPopTrace Consortium, Luca Bargelloni   +14 more
doaj   +1 more source

Fully automated annotation of mitochondrial genomes using a cluster-based approach with de Bruijn graphs

Frontiers in Genetics, 2023
A wide range of scientific fields, such as forensics, anthropology, medicine, and molecular evolution, benefits from the analysis of mitogenomic data. With the development of new sequencing technologies, the amount of mitochondrial sequence data to be ...
Lisa Fiedler, Martin Middendorf, Matthias Bernt   +2 more
doaj   +1 more source

Investigating transcription factor dynamics in health and disease using FRAP

FEBS Letters, EarlyView.
FRAP analysis of GFP‐tagged transcription factors reveals how molecular mobility and target engagement change in response to drug treatment. By combining live‐cell imaging, quantitative model fitting, and statistical analysis, this approach uncovers transcription factor dynamics linked to disease mechanisms, providing a powerful framework for ...
Kannan Govindaraj, Carolina Vazquez Garzon, Jose Joaquin Velasco, Janine N. Post   +3 more
wiley   +1 more source

High-throughput proteogenomics of Ruegeria pomeroyi: seeding a better genomic annotation for the whole marine Roseobacter clade [PDF]

, 2012
Background The structural and functional annotation of genomes is now heavily based on data obtained using automated pipeline systems. The key for an accurate structural annotation consists of blending similarities between closely related genomes with ...
Christie-Oleza Joseph A, Miotello, Guylaine, Joseph A Christie-Oleza, Jean Armengaud, Armengaud, J., Armengaud, Jean, Guylaine Miotello, Miotello Guylaine, Christie-Oleza, Joseph Alexander, Armengaud Jean, Christie-Oleza, Joseph A   +10 more
core   +1 more source

Improvements in viral gene annotation using large language models and soft alignments

BMC Bioinformatics
Background The annotation of protein sequences in public databases has long posed a challenge in molecular biology. This issue is particularly acute for viral proteins, which demonstrate limited homology to known proteins when using alignment, k-mer, or ...
William L. Harrigan, Barbra D. Ferrell, K. Eric Wommack, Shawn W. Polson, Zachary D. Schreiber, Mahdi Belcaid   +5 more
doaj   +1 more source

GOPET: A tool for automated predictions of Gene Ontology terms

BMC Bioinformatics, 2006
Background Vast progress in sequencing projects has called for annotation on a large scale. A Number of methods have been developed to address this challenging task.
Glatting Karl-Heinz, Eils Roland, Schubert Falk, del Val Coral, Vinayagam Arunachalam, Suhai Sándor, König Rainer   +6 more
doaj   +1 more source

An epithelial GPR35 isoform supports tumor‐associated transcriptional and metabolic phenotypes

FEBS Letters, EarlyView.
GPR35 generates two functionally distinct isoforms with previously unresolved roles. GPR35‐short mediates immune‐cell chemotaxis, while GPR35‐long is enriched in colorectal cancer epithelium, where it supports increased metabolism, proliferation, and tumor‐associated transcriptional programs.
Jørgen D. Rønneberg, Martine Hjeltnes, Josephine Krieger, Joshua E. Elias, Maria Stensland, Kristian Holm, Xiaojun Jiang, Chuki Khangsar, Tuula A. Nyman, Arthur Kaser, Johannes R. Hov, Tom H. Karlsen, Nicole C. Kaneider, Frode L. Jahnsen, Georg Schneditz   +14 more
wiley   +1 more source

Shape based indexing for faster search of RNA family databases [PDF]

, 2008
Janssen S, Reeder J, Giegerich R. Shape based indexing for faster search of RNA family databases. BMC Bioinformatics. 2008;9(1):131.Background: Most non-coding RNA families exert their function by means of a conserved, common secondary structure.
Janssen Stefan, Reeder Jens, Janssen, Stefan ; https://orcid.org/, Reeder, Jens, Giegerich, Robert, Giegerich Robert   +5 more
core   +1 more source

Proteotranscriptomics assisted gene annotation and spatial proteomics of Bombyx mori BmN4 cell line

BMC Genomics, 2020
Background The process of identifying all coding regions in a genome is crucial for any study at the level of molecular biology, ranging from single-gene cloning to genome-wide measurements using RNA-seq or mass spectrometry.
Michal Levin, Marion Scheibe, Falk Butter   +2 more
doaj   +1 more source

Structure‐forward targeting of claudins with synthetic binders

FEBS Letters, EarlyView.
Claudins form the paracellular barriers between epithelial and endothelial tissues at tight junctions and are targets for molecular binders with the goal of modulating barrier permeability. Claudin‐binding molecules are relevant in drug delivery or in altering claudin interactions with disease‐causing proteins.
Alex J. Vecchio
wiley   +1 more source