Pfam: clans, web tools and services

Keywords

Biology, Web site, Computational biology, Bioinformatics, World Wide Web

References

• The Integr8 Project – A Resource for Genomic and Proteomic DataManuela Pruess, Paul Kersey, Rolf Apweiler — 2005
• ProtoMap: automatic classification of protein sequences and hierarchy of protein familiesGolan Yona — 2000
• iPfam: visualization of protein?Cprotein interactions in PDB at domain and amino acid resolutionsROBERT FINN, Mhairi Marshall, Alex Bateman — 2005
• The CATH Domain Structure Database and related resources Gene3D and DHS provide comprehensive domain family information for genome analysisFrances M. G. Pearl — 2004
• Pfam: multiple sequence alignments and HMM-profiles of protein domainsErik L. L. Sonnhammer — 1998
• SCOP database in 2004: refinements integrate structure and sequence family dataAntonina Andreeva — 2004
• Recent improvements to the PROSITE databaseNicolas Hulo — 2004
• MUSCLE: multiple sequence alignment with high accuracy and high throughput.R. C. Edgar — 2004
• SMART 4.0: towards genomic data integrationIvica Letunić — 2004
• Three-parameter lognormal distribution ubiquitously found in cDNA microarray data and its application to parametric data treatmentTomokazu Konishi — 2004
• The SUPERFAMILY database in 2004: additions and improvementsMartin Madera — 2004
• The Universal Protein Resource (UniProt)Amos Bairoch — 2004
• Recent improvements to the SMART domain-based sequence annotation resourceIvica Letunić — 2002
• SUPFAM: A database of sequence superfamilies of protein domainsShashi Bhushan Pandit, Rana Bhadra, V. S. Gowri — 2004
• The Pfam protein families databaseROBERT FINN, Jaina Mistry, John Tate — 2007
• Visualizing profile-profile alignment: pairwise HMM logosBenjamin Schuster‐Böckler, Alex Bateman — 2005
• BMC Bioinformatics BioMed Central Database SUPFAM: A database of sequence superfamilies of protein domains2004
• BIOINFORMATICS APPLICATIONS NOTE Sequence analysis Visualizing profile–profile alignment: pairwise HMM logos2005

Cited by

• Regulation and export of alginate in Pseudomonas aeruginosa : a thesis presented in partial fulfilment of the requirements for the degree of Master of Doctor of Philosophy in Microbiology at Massey UniversityIain D. Hay — 2011
• Characterization of an ATP-dependent DNA ligase from the acidophilic archaeon “Ferroplasma acidarmanus” Fer1宏紀 安川, 耕平 西, 卓 祢宜 — 2006
• A Conserved Carboxylesterase Is a SUPPRESSOR OF AVRBST-ELICITED RESISTANCE in Arabidopsis[W][OA]H. U. Keller, M. Küppers, S. F. Hviid — 2007
• Evolutionary biology of plant food allergens.Eduard Sagarra i Trias — 2007
• Lysophospholipase from the human blood fluke, Schistosoma japonicum.Jinjiang Fan, Wen Yang, Paul J. Brindley — 2008
• AvrACXcc8004, a Type III Effector with a Leucine-Rich Repeat Domain from Xanthomonas campestris Pathovar campestris Confers Avirulence in Vascular Tissues of Arabidopsis thaliana Ecotype Col-0Weng Yue Chong — 2007
• AlterORF: a database of alternate open reading framesJustiniano García Prado — 2007
• The spindle protein CHICA mediates localization of the chromokinesin Kid to the mitotic spindle.Sophie Pène — 2008
• Comparative genomics of Geobacter chemotaxis genes reveals diverse signaling function김일원 — 2008
• Complete Genome of the Broad-Host-Range Erwinia amylovora Phage ΦEa21-4 and Its Relationship to Salmonella Phage Felix O1Rafael Ávila Soto — 2009
• Inaugural Article: A transcriptomic analysis of superhybrid rice LYP9 and its parentsLuis Maldonado, Mariano Sinués — 2009
• Borrelia burgdorferi bb0426 encodes a 2′-deoxyribosyltransferase that plays a central role in purine salvageKyongmin Yeo, Enkeleida Lushi, Petia M. Vlahovska — 2009
• Deletion of a Cation Transporter Promotes Lysis in Streptococcus pneumoniaeAlvimar Marchesotti Machado — 2011
• Expression during Host Infection and Localization of Yersinia pestis Autotransporter ProteinsMariki M. Eloff — 2011
• Knockdown of bicaudal C in zebrafish (Danio rerio) causes cystic kidneys: a nonmammalian model of polycystic kidney disease.Denise J. Bouvrette, Vinoth Sittaramane, Jerry R. Heidel — 2010
• In Silico Structural and Functional Annotation of Hypothetical Proteins of Vibrio cholerae O139成子 黒田 — 2015
• C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin associationDug Song, Gary P. Shaffer, M. Undy — 2015
• Methuselah/Methuselah-like G protein-coupled receptors constitute an ancient metazoan gene familyJonathon Matthew Campbell — 2016
• EBV noncoding RNA EBER2 interacts with host RNA-binding proteins to regulate viral gene expressionNara Lee, Therese A. Yario, Jessica S. Gao — 2016
• Bioinformatics Tools and Resources for Analyzing Protein Structures.信人 森, 泰昭 佐地, 孝昌 重松 — 2017

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