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Pfam
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The Pfam database is large collection of multiple sequence alignments and hidden Markov models (HMMs) covering many common protein domains and families. Pfam aims to provide a complete and accurate classification of protein families and domains for a wide range of users: experimental, structural, and computational biologists. It also allows users to submit protein or…
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InterPro
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InterPro is a resource that provides functional analysis of protein sequences by predicting the presence of domains and important sites. It uses predictive models provided by several collaborating databases that collectively make up the InterPro consortium. A key value of InterPro is that it combines protein annotation from these member databases into a single searchable…
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ELIXIR
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BioComputing UP is a member of ELIXIR, an intergovernmental organization that brings together life science resources from across Europe. These resources include databases, software tools, training materials, cloud storage and supercomputers.The goal of ELIXIR is to coordinate these resources so that they form a single infrastructure. This infrastructure makes it easier for scientists to find…
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PostDoc researcher for a AIRC project
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The BiocomputingUP Group at the University of Padova seeks a motivated PostDoc researcher for a AIRC project on intrinsically disordered proteins (IDPs) aimed at developing anti-cancer agents. The candidate will conduct advanced IDP research, collaborate with interdisciplinary teams, and publish findings. Requirements include a PhD in Opportunities include working in a dynamic, international environment and engaging in global collaborations.…
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Non-globular domains in human diseases
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Non-globular proteins (NGPs) encompass diverse molecular phenomena that challenge the traditional sequence-structure-function paradigm, including intrinsically disordered regions, tandem repeats, aggregating domains, low-complexity sequences, and transmembrane domains. While NGPs are implicated in numerous human diseases (neurodegenerative disorders, cancers, etc), progress in predicting and assessing mutations affecting non-globular regions has been hindered by the lack of a…
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Apicuron
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APICURON is an advanced platform designed to recognize and reward various contributions within the scientific community, offering traceable and measurable insights that ensure each effort is acknowledged through a system of badges and medals. Its primary function is to track and measure contributions effectively, making it particularly valuable for biological databases that need to acknowledge…
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Biocuration & standards
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Curated databases have become an essential part of modern molecular biology. The curated databases and scientific data collected result from the significant work and effort of the biocurator community. In simplified terms, they One of the central activities at the BioComputing UP group is the manual curation of curated databases in the context of Intrinsically…
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DOME
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DOME is a set of community-wide recommendations (ref paper nature methods) for reporting supervised machine learning-based analyses applied to biological studies. In the form of questions, the DOME recommendations are divided into four sections: data, optimization, model and evaluation. It’s considered as the minimal requirement for an author to take on consideration while writing a…
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IDPs Infrastructure
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At the BiocomputingUP Lab at the University of Padova, we have established a comprehensive infrastructure and a range of services dedicated to the study of intrinsically disordered proteins or regions (IDPs/IDRs). These proteins exist and function without a well-defined three-dimensional structure, resulting in limited conservation at the sequence level. To address the challenges posed by…