[HTML][HTML] Improving bioinformatics prediction of microRNA targets by ranks aggregation

A Quillet, C Saad, G Ferry, Y Anouar, N Vergne… - Frontiers in …, 2020 - frontiersin.org
… to rerank them into a single list. Instead of deciding which prediction … An example of miRabel
web interface is shown using … those of the authors and do not necessarily represent those of …

VarFish: comprehensive DNA variant analysis for diagnostics and research

M Holtgrewe, O Stolpe, M Nieminen… - … acids research, 2020 - academic.oup.com
… In the light of rapid growth and frequent updates of public … or advanced bioinformatics
skills. Here, we report on our … a growing list of databases with Table 2 showing a list of the …

InterPro in 2022

T Paysan-Lafosse, M Blum, S Chuguransky… - … acids research, 2023 - academic.oup.com
… , including updates to data content and to the website. These … list of matches in the protein
sequence viewer and the full list … run further bioinformatics analysis to suit their research needs…

[HTML][HTML] Using phosphoproteomics data to understand cellular signaling: a comprehensive guide to bioinformatics resources

SR Savage, B Zhang - Clinical Proteomics, 2020 - Springer
… Furthermore, there is no comprehensive list of tools to aid those … The year of last update
was assumed to be the year of … These often do not include the exact phosphorylation site, but …

TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes

JP Meier-Kolthoff, JS Carbasse… - … acids research, 2022 - academic.oup.com
… high-level facilities providing access to bioinformatic algorithms, a … LPSN databases, including
updates and improvements which … Users are advised to register for the LPSN mailing list

[HTML][HTML] A joint NCBI and EMBL-EBI transcript set for clinical genomics and research

J Morales, S Pujar, JE Loveland, A Astashyn, R Bennett… - Nature, 2022 - nature.com
… because a few RefSeq transcripts do not perfectly match the … However, we will allow updates
on the rare occasion that … A complete list of MANE transcripts with RefSeq and Ensembl …

The IMG/M data management and analysis system v. 6.0: new tools and advanced capabilities

IMA Chen, K Chu, K Palaniappan, A Ratner… - … acids research, 2021 - academic.oup.com
… (D) The list shows all metagenome bins in the Nodule … bioinformatics experience. In order
to support this growth, we will continue improving the annotation pipeline (including the update

Software tools, databases and resources in metabolomics: updates from 2018 to 2019

K O'Shea, BB Misra - Metabolomics, 2020 - Springer
… stability of bioinformatics software. Mangul et al. (2019) … windows and generates a single
peak list for the full spectrum, … mass spectrometry based data by performing steps such as data …

[HTML][HTML] SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data

Y Dufresne, F Lejzerowicz, LA Perret-Gentil… - … bioinformatics, 2019 - Springer
… We introduce SLIM, an open-source web application that simplifies the creation and execution
of metabarcoding data processing pipelines through an intuitive Graphic User Interface (…

STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

D Szklarczyk, AL Gable, D Lyon, A Junge… - … acids research, 2019 - academic.oup.com
list of partnered, crosslinked resources as well as applicable direct data import options to
facilitate our regular data updates. … Incorporation into the German bioinformatics infrastructure …