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Time-of-Flight mass spectrometer for high-speed acquisition of highly multi-parametric single cell data

CyTOF Helios

The CyTOF Helios analyzes cells labeled with stable heavy metal isotopes using state-of-the-art time-of-flight atomic mass cytometry technology. Single-cell experimentation methods provide critical advances for research in cancer, cardiovascular biology, embryonic stem cells and development, hematopoietic stem cells and progenitors, immunity and infectious disease.

  • Multi-parametric single cell data, deep profiling
  • Detect up to 42 parameters simultaneously in a single sample
  • Detect more from limited samples
  • Advantages over traditional flow cytometry: No background, no overlap between channels, no compensation issues
  • Now available for tissue sections with Imaging Mass Cytometry (IMC)


"In house" in our core we maintain:

  • a repository of well-characterized metal conjugated antibodies
  • metal labeling reagents for conjugation of antibodies to these metals: 145Nd, 148Nd, 158Gd, 160 Gd, 164Dy, 165Ho, 171Yb, 173Yb.
  • Metal conjugated anti-fluorochrome antibodies (e.g. anti-FITC) that can be used with existing fluorescent reagents.
  • CyTOF Antibody Panel Guide
  • Individual metal-conjugated individual antibodies (>500) and panel kits are available from Fluidigm

Available Resources:

  1. Cell Surface Staining Protocol for CyTOF2 Mass Spectrometry
  2. Sample preparation using barcoding for CyTOF
  3. Data analysis and clustering algorithms of CyTOF data are available through the Bioinformatics Service at the Yale Center for Genome Analysis.
  4. Useful web links for new users

Biosafety Policies:

All infectious, human, and non-human primate cells must be fixed before they are analyzed on the CyTOF.

For scheduling through LOTIS click here.


CyTOF analysis is available to Yale University investigators as a fee for service. Non-Yale users will be accommodated as possible. Please contact Dr. Konnikova.

Recent publications from the Yale CyTOF facility

  1. Boddupalli, C. S., N. Bar, K. Kadaveru, M. Krauthammer, N. Pornputtapong, Z. Mai, S. Ariyan, D. Narayan, H. Kluger, Y. Deng, R. Verma, R. Das, A. Bacchiocchi, R. Halaban, M. Sznol, M. V. Dhodapkar, and K. M. Dhodapkar. 2016. Interlesional diversity of T cell receptors in melanoma with immune checkpoints enriched in tissue-resident memory T cells. JCI Insight 1: e88955.
  2. Montgomery, R. R. 2016. High Standards for High Dimensional Investigations. Cytometry A 89: 886-888.
  3. Yao, Y., T. Welp, Q. Liu, N. Niu, X. Wang, C. J. Britto, S. Krishnaswamy, G. L. Chupp, and R. R. Montgomery. 2017. Multiparameter single cell profiling of airway inflammatory cells. Cytometry. Part B, Clinical cytometry 92: 12-20.
  4. Vasquez, J. C., A. Huttner, L. Zhang, A. Marks, A. Chan, J. M. Baehring, K. T. Kahle, and K. M. Dhodapkar. 2017. SOX2 immunity and tissue resident memory in children and young adults with glioma. J Neurooncol 134: 41-53.
  5. Herndler-Brandstetter, D., L. Shan, Y. Yao, C. Stecher, V. Plajer, T. Strowig, M. R. de Zoete, N. W. Palm, Y. Zheng, J. Chen, C. Gurer, L. E. MacDonald, A. J. Murphy, D. M. Valenzuela, C. A. Blish, G. D. Yancopoulos, R. R. Montgomery, and R. A. Flavell. 2017. A novel humanized mouse model supports development, function and tissue-residency of human NK cells. Proceedings of the National Academy of Sciences of the United States of America 114: E9626-E9634.

Sample Submission Form

Please contact us at to request sample preparation guidelines and a sample submission form.


Liza Konnikova, MD, PhD

Biotechnology Associate:

Ms. Shelly Ren To join CyTOF Users Group email list and for schedule of meetings:

Ms. Annette Torres

Location: TAC s416, (203) 785-7049