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List of works by Kimmen Sjölander

Active site prediction using evolutionary and structural information

scientific article

Arabidopsis downy mildew resistance gene RPP27 encodes a receptor-like protein similar to CLAVATA2 and tomato Cf-9.

scientific article published on 21 May 2004

Arabidopsis thaliana PGR7 encodes a conserved chloroplast protein that is necessary for efficient photosynthetic electron transport

scientific article

Automated protein subfamily identification and classification

scientific article

Berkeley PHOG: PhyloFacts orthology group prediction web server

scientific article published on 12 May 2009

Berkeley Phylogenomics Group web servers: resources for structural phylogenomic analysis

scientific article published on 8 May 2007

Distribution and Properties of the Genes Encoding the Biosynthesis of the Bacterial Cofactor, Pyrroloquinoline Quinone ⬇️

scientific article published on March 9, 2012

FlowerPower: clustering proteins into domain architecture classes for phylogenomic inference of protein function

scientific article

From endonucleases to transcription factors: evolution of the AP2 DNA binding domain in plants

scientific article published on 19 August 2004

Functional classification using phylogenomic inference

scientific article

Getting started in structural phylogenomics

scientific article (publication date: 29 January 2010)

INTREPID--INformation-theoretic TREe traversal for Protein functional site IDentification

scientific article published on 6 September 2008

INTREPID: a web server for prediction of functionally important residues by evolutionary analysis

scientific article published on 13 May 2009

ModBase, a database of annotated comparative protein structure models, and associated resources

scientific article

Molecular characterization of proteolytic cleavage sites of the Pseudomonas syringae effector AvrRpt2.

scientific article

Ortholog identification in the presence of domain architecture rearrangement ⬇️

scientific article published on June 28, 2011

PhyloFacts: an online structural phylogenomic encyclopedia for protein functional and structural classification

scientific article published on January 2006

Phylogenomic inference of protein molecular function: advances and challenges

scientific article

Predicted hexameric structure of the Agrobacterium VirB4 C terminus suggests VirB4 acts as a docking site during type IV secretion

scientific article

Proteome analysis of the rice etioplast: metabolic and regulatory networks and novel protein functions

scientific article published on 18 May 2005

ResBoost: characterizing and predicting catalytic residues in enzymes

scientific article

SATCHMO-JS: a webserver for simultaneous protein multiple sequence alignment and phylogenetic tree construction

scientific article

Simultaneous sequence alignment and tree construction using hidden Markov models.

scientific article published in January 2003

Standardized benchmarking in the quest for orthologs

scientific article (publication date: 4 April 2016)

Subfamily hmms in functional genomics.

scientific article published in January 2005

Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA)

scientific article

The COMBREX project: design, methodology, and initial results

scientific article

The Generation Challenge Programme comparative plant stress-responsive gene catalogue

scientific article

The PhyloFacts FAT-CAT web server: ortholog identification and function prediction using fast approximate tree classification

scientific article (publication date: July 2013)

The interface of protein structure, protein biophysics, and molecular evolution

scientific article

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