Human Oral Microbe Identification using Next Generation Sequencing


We are pleased to announce the next generation HOMIM, which utilizes the speed and efficiency of next generation sequencing combined with the refinement of species-level identification.


  • Species-level identification of nearly 600 oral bacterial taxa
  • Genus-level identification of remaining sequences for 129 genera

  • High-throughput Illumina sequencing
  • In silico 16S rDNA probe analysis
  • Rapid—computationally-efficient
  • More comprehensive than HOMIM
  • User-friendly dataset, e.g., % frequency
  • Traditional bioinformatics available, e.g., QIIME
  • Economical (note price change effective 7/1/2016)


History of HOMIM

The Human Oral Microbe Identification Microarray, known as HOMIM, has provided the scientific community a rapid means for oral bacterial identification in clinical samples since February 2008. Developed from the research of Dr. Bruce Paster and Dr. Floyd Dewhirst, HOMIM allowed for the simultaneous detection of about 270 of the most prevalent, cultivated and not-yet-cultivated oral bacterial species. HOMIM has been recognized as a valuable research tool by over 120 investigators or teams from academic and private national and international institutions, government, and industry. Resulting from these studies have been 56 peer-reviewed publications(one just added 11/23/16) , 8 reviews describing HOMIM, and over 50 presentations at national and international meetings. Since the end of 2014, the new HOMIM, HOMINGS, will continue in that tradition, as many collaborators are already using this methodology (see Testimonials). Nineteen peer-reviewed publications and 2 reviews have resulted from these studies.


Utility of HOMINGS

As with HOMIM, many types of studies can be performed including the following:


  • Determine and compare bacterial associations in oral health and disease, including different types of periodontitis, caries, gingivitis, ventilator-associated pneumonia, endodontic and odontogenic lesions, abscesses, and halitosis
  • Determine the efficacy of therapies/treatments, e.g., mouth rinses, antibiotic treatment, scaling and root planing, and laser or periodontal surgery
  • Determine the progression of oral diseases
  • Determine those patients at risk for periodontitis and other oral diseases
  • Determine potential biomarkers for non-oral, systemic diseases, e.g., Crohn's Disease and pancreatic cancer

HOMINGS service procedure

Investigators submit DNA isolated from clinical samples (see Sample Preparation) and receive online data analyses in the form of excel spread sheets as % frequencies. Arrangements can be made to download raw data, e.g., FASTQ files. QIIME analysis can be provided at an additional charge, which is dependent upon the size and extent of the project. However, due to the varied nature of projects, in-depth statistical analyses are not generally provided.


Time frame for HOMINGS analyses

Results can be supplied within 2 weeks; however this time frame may take longer depending upon the position in the queue.


At this time, HOMINGS are to be used only for research endeavors and cannot be used for diagnostic purposes.


To learn more about this service including potential collaboration, please contact Dr. Paster at bpaster@forsyth.org or 617-892-8288.


HOMIM/HOMINGS have had over 10,000 visits from more than 6,000 unique visitors from all 50 US States and 87 countries.