POSA: a user-driven, interactive multiple protein structure alignment server

Z Li, P Natarajan, Y Ye, T Hrabe… - … acids research, 2014 - academic.oup.com
… in individual, password-protected directories. In the updated POSA server described here, …
overview of features of several recent MPStrA web servers and the supplemental material for …

BioGPS: an extensible and customizable portal for querying and organizing gene annotation resources

C Wu, C Orozco, J Boyer, M Leglise, J Goodale… - Genome biology, 2009 - Springer
… In prioritizing this gene list, many researchers would … implement a mechanism for data updates
from primary sources. Overall… generated data sets or bioinformatic predictions (for example…

Protein structure homology modeling using SWISS-MODEL workspace

L Bordoli, F Kiefer, K Arnold, P Benkert, J Battey… - Nature protocols, 2009 - nature.com
… This article has been updated … From the resulting list of possible candidate structures, a
template structure … alignment is a major topic of study in bioinformatics, and the advancements in …

BAGET: a web server for the effortless retrieval of prokaryotic gene context and sequence

J Oberto - Bioinformatics, 2008 - academic.oup.com
… Even with the plethora of bioinformatics web servers available today offering a variety of
tools … Conducting research on the web: 2007 update for the bioinformatics links directory

ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins

M Wiederstein, MJ Sippl - Nucleic acids research, 2007 - academic.oup.com
… Here we present a web-based version of ProSA, ProSA-web, that encompasses the basic
… of molecular biology web servers: 2006 update on the Bioinformatics Links Directory

Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool

EY Chen, CM Tan, Y Kou, Q Duan, Z Wang… - … bioinformatics, 2013 - Springer
… Here, we present Enrichr, an integrative web-based and … analysis tools focus on performing
enrichment using only the … that we are continually updating and originally published as part …

Exploring the functional landscape of gene expression: directed search of large microarray compendia

MA Hibbs, DC Hess, CL Myers, C Huttenhower… - …, 2007 - academic.oup.com
… a web-accessible search engine at http://function.princeton.edu/SPELL. Our interface allows
a researcher to provide a list of … studies have been conducted that support these predictions. …

Gene expression atlas at the European bioinformatics institute

M Kapushesky, I Emam, E Holloway… - … acids research, 2010 - academic.oup.com
… The database is updated monthly, and is growing constantly. … a list of top 10 differentially
expressed genes for the selected … The submitter's; normalized data are used, hence we do not …

The European Bioinformatics Institute in 2017: data coordination and integration

CE Cook, MT Bergman, G Cochrane… - … acids research, 2018 - academic.oup.com
… ELIXIR has also compiled a list of archival resources that are … large data resources before
undertaking analyses. Embassy … Since our last update we have developed a competency-…

VectorBase: an updated bioinformatics resource for invertebrate vectors and other organisms related with human diseases

GI Giraldo-Calderón, SJ Emrich… - … acids research, 2015 - academic.oup.com
website (Figure 1), while more complex and/or large-scale queries to search and retrieve data
can be conducted … A full list is available in the PopBio browser under the Tools menu, and …