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Pfam

Related publications (19)

fGOT: Graph Distances Based on Filters and Optimal Transport

Pascal Frossard, Mireille El Gheche, Hermina Petric Maretic, Giovanni Chierchia

Graph comparison deals with identifying similarities and dissimilarities between graphs. A major obstacle is the unknown alignment of graphs, as well as the lack of accurate and inexpensive comparison metrics. In this work we introduce the filter graph dis ...

ASSOC ADVANCEMENT ARTIFICIAL INTELLIGENCE2022

Automatic Content Curation of Visual Heritage

Mathieu Salzmann, Frédéric Kaplan, Delphine Ribes Lemay, Nicolas Henchoz, Valentine Bernasconi

Digitization and preservation of large heritage induce high maintenance costs to keep up with the technical standards and ensure sustainable access. Creating impactful usage is instrumental to justify the resources for long-term preservation. The Museum fü ...

2021

Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study

Giovanna Ambrosini, Philipp Bucher, Romain Fernand Pietro Groux

BackgroundPositional weight matrix (PWM) is a de facto standard model to describe transcription factor (TF) DNA binding specificities. PWMs inferred from in vivo or in vitro data are stored in many databases and used in a plethora of biological application ...

2020

Modeling annotator behaviors for crowd labeling

Oya Aran

Machine learning applications can benefit greatly from vast amounts of data, provided that reliable labels are available. Mobilizing crowds to annotate the unlabeled data is a common solution. Although the labels provided by the crowd are subjective and no ...

2015

EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era

Giovanna Ambrosini, Philipp Bucher, René Dreos, Rouayda Cavin Perier

The Eukaryotic Promoter Database (EPD), available online at http://epd.vital-it.ch, is a collection of experimentally defined eukaryotic POL II promoters which has been maintained for more than 25 years. A promoter is represented by a single position in th ...

Oxford University Press2013

A Novel Alignment Procedure and Results for the LHCb Silicon Tracker Detector

Frédéric Guillaume Dupertuis

The LHCb experiment is designed to perform high-precision measurements of CP-violation and rare decays of B hadrons at the Large Hadron Collider. The Silicon Tracker (ST) is a silicon strip detector intended to precisely measure the particle trajectories p ...

Ieee2011

PANDITplus: toward better integration of evolutionary view on molecular sequences with supplementary bioinformatics resources

Slavica Dimitrieva Janeva

Recent comparative genomic and other large-scale bioinformatics studies increasingly have been using gene annotations, functional classifications, and complimentary data from the emerging “-omics” disciplines. Indeed, such analyses have better chances to u ...

2010

HTPSELEX--a database of high-throughput SELEX libraries for transcription factor binding sites

Philipp Bucher

HTPSELEX is a public database providing access to primary and derived data from high-throughput SELEX experiments aimed at characterizing the binding specificity of transcription factors. The resource is primarily intended to serve computational biologists ...

2006

InterPro, progress and status in 2005

Philipp Bucher, Amos Bairoch

InterPro, an integrated documentation resource of protein families, domains and functional sites, was created to integrate the major protein signature databases. Currently, it includes PROSITE, Pfam, PRINTS, ProDom, SMART, TIGRFAMs, PIRSF and SUPERFAMILY. ...

2005

The Eukaryotic Promoter Database EPD: the impact of in silico primer extension

Philipp Bucher, Rouayda Cavin Perier

The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, experimentally defined by a transcription start site (TSS). There may be multiple promoter entries for a single gene. The underlying experimenta ...

2004

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