Reference health
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
34/34 checkable references clean · checked 2026-08-08
Every reference with a DOI in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a retraction, withdrawal, or removal notice.
19 without a DOI — not checked. A reference deposited without a DOI is never matched by title or guessed at; it stays outside the checked set, and this line discloses that.
The 34 checked references that resolve
resolves10.1093/bioinformatics/18.7.908
Clustering of proximal sequence space for the identification of protein families
resolves10.1093/nar/gkg081
PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data
resolves10.1038/nature01099
Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii
resolves10.1126/science.282.5396.2022
Comparison of the Complete Protein Sets of Worm and Yeast: Orthology and Divergence
resolves10.1147/sj.402.0512
K2/Kleisli and GUS: Experiments in integrated access to genomic data sources
resolves10.1016/S0168-9525(02)02650-1
A hot story from comparative genomics: reverse gyrase is the only hyperthermophile-specific protein
resolves10.1093/emboj/20.3.330
A plastid segregation defect in the protozoan parasite Toxoplasma gondii
resolves10.1126/science.275.5305.1485
A Plastid of Probable Green Algal Origin in Apicomplexan Parasites
resolves10.1101/gr.212002
Cross-Referencing Eukaryotic Genomes: TIGR Orthologous Gene Alignments (TOGA)
resolves10.1101/gr.8.6.590
Large-Scale Taxonomic Profiling of Eukaryotic Model Organisms: A Comparison of Orthologous Proteins Encoded by the Human, Fly, Nematode, and Yeast Genomes
resolves10.1023/A:1004031323748
Using the COG Database to Improve Gene Recognition in Complete Genomes
resolves10.1186/gb-2000-1-5-research0009
Towards understanding the first genome sequence of a crenarchaeon by genome annotation using clusters of orthologous groups of proteins (COGs)
resolves10.1093/nar/28.1.141
The TIGR Gene Indices: reconstruction and representation of expressed gene sequences
resolves10.1093/nar/29.1.159
The TIGR Gene Indices: analysis of gene transcript sequences in highly sampled eukaryotic species
resolves10.1006/jmbi.2000.5197
Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
resolves10.1016/S0169-4758(98)01367-2
The Apicoplast as a Potential Therapeutic Target in Toxoplasma and Other Apicomplexan Parasites: Some Additional Thoughts
resolves10.1093/nar/28.1.33
The COG database: a tool for genome-scale analysis of protein functions and evolution
resolves10.1093/nar/29.1.22
The COG database: new developments in phylogenetic classification of proteins from complete genomes
resolves10.1093/nar/22.22.4673
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
resolves10.1016/S0378-1119(99)00298-X
Human and nematode orthologs — lessons from the analysis of 1800 human genes and the proteome of Caenorhabditis elegans
The 19 references without a DOI — listed, not checked
no DOI — not checkedShi, J. and Malik, J. 1997. Normalized cuts and image segmentation. Proc. IEEE Conf. Comp. Vision Pattern Recognit. 731â737.
no DOI — not checkedVan Dongen, S. 2000. âGraph clustering by flow simulation.â Ph.D thesis, University of Utrecht, The Netherlands.
no DOI — not checkedhttp://www.cbil.upenn.edu/gene-family; Putative ortholog groups generated by OrthoMCL, University of Pennsylvania.
no DOI — not checkedhttp://www.ncbi.nlm.nih.gov/COG/; The Clusters of Orthologous Groups (COG) database, NCBI.
no DOI — not checkedhttp://www.allgenes.org; The human and mouse gene index, University of Pennsylvania.
no DOI — not checkedhttp://www.tigr.org/tdb/tgi/; TIGR Gene Indices.
no DOI — not checkedhttp://www.tigr.org/tdb/tgi/ego/index.shtml; Eukaryotic Gene Orthologs (EGO), TIGR.
no DOI — not checkedhttp://us.expasy.org/enzyme; The ENZYME database, Bairoch A.
no DOI — not checkedhttp://blast.wustl.edu/; BLAST2, Washington University.
no DOI — not checkedhttp://www.ebi.ac.uk/clustalw/; CLUSTALW alignment, EBI.
no DOI — not checkedhttp://micans.org/mcl/; Markov Cluster Algorithm, Stijn van Dongen.
no DOI — not checkedhttp://www.cgb.ki.se/inparanoid/; INPARANOID program.
no DOI — not checkedhttp://www.plasmodb.org/, The Plasmodium Genome Database, University of Pennsylvania.
no DOI — not checkedhttp://www.fruitfly.org; The Berkeley Drosophila Genome Project (BDGP).
no DOI — not checkedhttp://genome-www.stanford.edu/Saccharomyces/; The Saccharomyces Genome Database (SGD).
no DOI — not checkedhttp://www.sanger.ac.uk/Projects/C_elegans/; The C. elegans Genome Project.
no DOI — not checkedhttp://www.genome.wisc.edu/; Escherichia coli Genome Project, University of Wisconsin.
no DOI — not checkedhttp://www.ensembl.org/; Ensembl, Sanger.
no DOI — not checkedhttp://www.tigr.org/tdb/e2k1/ath1/; TIGR, Arabidopsis thaliana Database.
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