Contact, publication, and social network information about Harvard faculty and fellows. Harvard Catalyst Profiles
Keywords
Last Name
Institution

Dennis Paul Wall

Title
InstitutionOther
Address

 Research 
 research resources
This researcher has shared information about their research resources
in the eagle-i Network. To update or add resource records, contact
eagle-i@hms.harvard.edu.
Wall Laboratory - Databases (1) and Software (3)

 Bibliographic 
 selected publications
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
List All   |   Timeline
  1. Vardarajan BN, Eran A, Jung JY, Kunkel LM, Wall DP. Haplotype structure enables prioritization of common markers and candidate genes in autism spectrum disorder. Transl Psychiatry. 2013; 3:e262.
    View in: PubMed
  2. Issa SA, Kienzler R, El-Kalioby M, Tonellato PJ, Wall D, Bruggmann R, Abouelhoda M. Streaming support for data intensive cloud-based sequence analysis. Biomed Res Int. 2013; 2013:791051.
    View in: PubMed
  3. Wall D. Autworks: a cross-disease analysis application for Autism and related disorders. AMIA Summits Transl Sci Proc. 2013; 2013:42-3.
    View in: PubMed
  4. Jung JY, Wall DP. Genetic Networks of Complex Disorders: from a Novel Search Engine for PubMed Article Database. AMIA Summits Transl Sci Proc. 2013; 2013:99.
    View in: PubMed
  5. El-Kalioby M, Abouelhoda M, Krüger J, Giegerich R, Sczyrba A, Wall DP, Tonellato P. Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics. 2012; 13 Suppl 17:S22.
    View in: PubMed
  6. Nelson TH, Jung JY, Deluca TF, Hinebaugh BK, St Gabriel KC, Wall DP. Autworks: a cross-disease network biology application for Autism and related disorders. BMC Med Genomics. 2012; 5:56.
    View in: PubMed
  7. Duda M, Nelson T, Wall DP. Cross-pollination of research findings, although uncommon, may accelerate discovery of human disease genes. BMC Med Genet. 2012; 13:114.
    View in: PubMed
  8. Kim I, Jung JY, Deluca TF, Nelson TH, Wall DP. Cloud computing for comparative genomics with windows azure platform. Evol Bioinform Online. 2012; 8:527-34.
    View in: PubMed
  9. Wall DP, Dally R, Luyster R, Jung JY, Deluca TF. Use of artificial intelligence to shorten the behavioral diagnosis of autism. PLoS One. 2012; 7(8):e43855.
    View in: PubMed
  10. Wall DP, Tonellato PJ. The future of genomics in pathology. F1000 Med Rep. 2012; 4:14.
    View in: PubMed
  11. Wall DP, Kosmicki J, Deluca TF, Harstad E, Fusaro VA. Use of machine learning to shorten observation-based screening and diagnosis of autism. Transl Psychiatry. 2012; 2:e100.
    View in: PubMed
  12. Suzuki S, Takai-Igarashi T, Fukuoka Y, Wall DP, Tanaka H, Tonellato PJ. Systems analysis of inflammatory bowel disease based on comprehensive gene information. BMC Med Genet. 2012; 13:25.
    View in: PubMed
  13. DeLuca TF, Cui J, Jung JY, St Gabriel KC, Wall DP. Roundup 2.0: enabling comparative genomics for over 1800 genomes. Bioinformatics. 2012 Mar 1; 28(5):715-6.
    View in: PubMed
  14. Cui J, DeLuca TF, Jung JY, Wall DP. Phylogenetically informed logic relationships improve detection of biological network organization. BMC Bioinformatics. 2011; 12:476.
    View in: PubMed
  15. Jung JY, Kohane IS, Wall DP. Identification of autoimmune gene signatures in autism. Transl Psychiatry. 2011; 1:e63.
    View in: PubMed
  16. Fusaro VA, Patil P, Gafni E, Wall DP, Tonellato PJ. Biomedical cloud computing with Amazon Web Services. PLoS Comput Biol. 2011 Aug; 7(8):e1002147.
    View in: PubMed
  17. Cui J, DeLuca TF, Jung JY, Wall DP. Detecting biological network organization and functional gene orthologs. Bioinformatics. 2011 Oct 15; 27(20):2919-20.
    View in: PubMed
  18. Kudtarkar P, Deluca TF, Fusaro VA, Tonellato PJ, Wall DP. Cost-effective cloud computing: a case study using the comparative genomics tool, roundup. Evol Bioinform Online. 2010; 6:197-203.
    View in: PubMed
  19. Wall DP, Pivovarov R, Tong M, Jung JY, Fusaro VA, DeLuca TF, Tonellato PJ. Genotator: a disease-agnostic tool for genetic annotation of disease. BMC Med Genomics. 2010; 3:50.
    View in: PubMed
  20. Goñi J, Arrondo G, Sepulcre J, Martincorena I, Vélez de Mendizábal N, Corominas-Murtra B, Bejarano B, Ardanza-Trevijano S, Peraita H, Wall DP, Villoslada P. The semantic organization of the animal category: evidence from semantic verbal fluency and network theory. Cogn Process. 2011 May; 12(2):183-96.
    View in: PubMed
  21. Wall DP, Kudtarkar P, Fusaro VA, Pivovarov R, Patil P, Tonellato PJ. Cloud computing for comparative genomics. BMC Bioinformatics. 2010; 11:259.
    View in: PubMed
  22. Cano C, Monaghan T, Blanco A, Wall DP, Peshkin L. Collaborative text-annotation resource for disease-centered relation extraction from biomedical text. J Biomed Inform. 2009 Oct; 42(5):967-77.
    View in: PubMed
  23. Wall DP, Esteban FJ, Deluca TF, Huyck M, Monaghan T, Velez de Mendizabal N, Goñí J, Kohane IS. Comparative analysis of neurological disorders focuses genome-wide search for autism genes. Genomics. 2009 Feb; 93(2):120-9.
    View in: PubMed
  24. Abu-Elneel K, Liu T, Gazzaniga FS, Nishimura Y, Wall DP, Geschwind DH, Lao K, Kosik KS. Heterogeneous dysregulation of microRNAs across the autism spectrum. Neurogenetics. 2008 Jul; 9(3):153-61.
    View in: PubMed
  25. Singh S, Wall DP. Testing the accuracy of eukaryotic phylogenetic profiles for prediction of biological function. Evol Bioinform Online. 2008; 4:217-23.
    View in: PubMed
  26. Wall DP, Deluca T. Ortholog detection using the reciprocal smallest distance algorithm. Methods Mol Biol. 2007; 396:95-110.
    View in: PubMed
  27. Deluca TF, Wu IH, Pu J, Monaghan T, Peshkin L, Singh S, Wall DP. Roundup: a multi-genome repository of orthologs and evolutionary distances. Bioinformatics. 2006 Aug 15; 22(16):2044-6.
    View in: PubMed
  28. Van Vactor D, Wall DP, Johnson KG. Heparan sulfate proteoglycans and the emergence of neuronal connectivity. Curr Opin Neurobiol. 2006 Feb; 16(1):40-51.
    View in: PubMed
  29. Herbeck JT, Wall DP. Converging on a general model of protein evolution. Trends Biotechnol. 2005 Oct; 23(10):485-7.
    View in: PubMed
  30. Kivisild T, Shen P, Wall DP, Do B, Sung R, Davis K, Passarino G, Underhill PA, Scharfe C, Torroni A, Scozzari R, Modiano D, Coppa A, de Knijff P, Feldman M, Cavalli-Sforza LL, Oefner PJ. The role of selection in the evolution of human mitochondrial genomes. Genetics. 2006 Jan; 172(1):373-87.
    View in: PubMed
  31. Wall DP. Origin and rapid diversification of a tropical moss. Evolution. 2005 Jul; 59(7):1413-24.
    View in: PubMed
  32. Sivakumaran TA, Shen P, Wall DP, Do BH, Kucheria K, Oefner PJ. Conservation of the RB1 gene in human and primates. Hum Mutat. 2005 Apr; 25(4):396-409.
    View in: PubMed
  33. Wall DP, Hirsh AE, Fraser HB, Kumm J, Giaever G, Eisen MB, Feldman MW. Functional genomic analysis of the rates of protein evolution. Proc Natl Acad Sci U S A. 2005 Apr 12; 102(15):5483-8.
    View in: PubMed
  34. Hirsh AE, Fraser HB, Wall DP. Adjusting for selection on synonymous sites in estimates of evolutionary distance. Mol Biol Evol. 2005 Jan; 22(1):174-7.
    View in: PubMed
  35. Fraser HB, Hirsh AE, Wall DP, Eisen MB. Coevolution of gene expression among interacting proteins. Proc Natl Acad Sci U S A. 2004 Jun 15; 101(24):9033-8.
    View in: PubMed
  36. Wall DP, Fraser HB, Hirsh AE. Detecting putative orthologs. Bioinformatics. 2003 Sep 1; 19(13):1710-1.
    View in: PubMed
  37. Herbeck JT, Wall DP, Wernegreen JJ. Gene expression level influences amino acid usage, but not codon usage, in the tsetse fly endosymbiont Wigglesworthia. Microbiology. 2003 Sep; 149(Pt 9):2585-96.
    View in: PubMed
  38. Wall DP, Herbeck JT. Evolutionary patterns of codon usage in the chloroplast gene rbcL. J Mol Evol. 2003 Jun; 56(6):673-88; discussion 689-90.
    View in: PubMed
  39. Fraser HB, Wall DP, Hirsh AE. A simple dependence between protein evolution rate and the number of protein-protein interactions. BMC Evol Biol. 2003 May 23; 3:11.
    View in: PubMed
  40. Wall DP. Use of the nuclear gene glyceraldehyde 3-phosphate dehydrogenase for phylogeny reconstruction of recently diverged lineages in Mitthyridium (Musci: Calymperaceae). Mol Phylogenet Evol. 2002 Oct; 25(1):10-26.
    View in: PubMed
Local representatives can answer questions about the Profiles website or help with editing a profile or issues with profile data. For assistance with this profile: HMS/HSDM faculty should contact Human Resources at faculty_serviceshms.harvard.edu.
Wall's Networks
Click the "See All" links for more information and interactive visualizations!
Concepts
_
Co-Authors
_
Similar People
_
Same Department
Physical Neighbors
_