Species-level identification of high-throughput sequencing data using HOMIM probes! These new analyses will provide a higher throughput using miSeq data, but with species-level identification using HOMIM probes! After fully validating the system, we plan to incorporate this technology into our service within the year.
International meetings. Thank you for visiting the Forsyth/HOMIM booth at the 2013 IADR in Seattle. Overall at the meeting, there were 8 presentations on HOMIM-related research. From the AADR meeting in Tampa in March 2012 and the IADR meeting in Brazil in June 2012, there were 13 abstracts. HOMIM was also represented at ASM in June, 2012. In 2011, HOMIM was well-represented at the IADR meeting in San Diego with 7 presentatons.
50 US States and 80 other countries have visited this site. Welcome Sri Lanka!
Pyrosequencing vs HOMIM. Ahn et al demonstrated that there is good correlation between HOMIM and 454 pyrosequencing. Although pyrosequencing does provide an open-ended, deep scope of the microbial diversity, HOMIM is advantageous in that it provides bacterial identification typically at the species level. Furthermore, the user-friendly final report, in excel format, allows for straightforward analysis in commercially-available statistical packages.
HOMIM recognition. HOMIMs are presently used in ongoing studies at The Forsyth Institute (9 PIs) and in other national and international collaborations with academic institutions (more than 80 investigators or teams), government including NIH (6 investigative teams), and industry (12 companies). From these studies using HOMIM, there are presently 25 peer-reviewed publications, 4 reviews describing HOMIM and 43 presentations at national and international meetings.
Oral microbial biomarkers in Crohn's Disease! HOMIM has utility beyond determining bacterial associations in oral health and oral diseases. Specific oral bacterial species, bacterial complexes, or entire oral microbial profiles, as determined from HOMIM analyses, may serve as potential biomarkers for non-oral systemic diseases. For example, there was a significant decrease in overall diversity in the oral microbiome of pediatric Crohn's Disease as compared to that of healthy children and children with ulcerative colitis.
Oral microbial biomarkers in pancreatic cancer! Potential oral microbial biomarkers of pancreatic cancer have been reported. Neisseria elongata and Streptococcus mitis were detected significantly less often in the saliva of cancer patients than in saliva of healthy controls. In contrast, levels of Granulicatella adiacens were significantly higher in cancer subjects.
All data are MIAME compliant, which is a requirement for publication in some journals. If requested, HOMIM data can be deposited in a MIAME compliant database, such as GEO.
HOMIM data can be analyzed using many statistical methods. As an example, correspondence analysis (CA) was used to provide a graphic method of examining the relationship of entire microbial profiles with respect to site characteristics (e.g., health and disease, pocket depth).
Colombo et al. (2009) is a culmination of our five year study on determining the bacterial species associated with health, periodontitis and refractory periodontitis. A follow-up paper on refractory periodontitis and effect of treatment is now in press. The 2009 Colombo paper and Preza et al. (2009a) have detailed descriptions of HOMIM.
See people from the lab.