scholarly journals Spectracular: minimizing spectral overlap in multicolor flow cytometry experiments

2021 ◽  
Author(s):  
Mike Bogetofte Barnkob ◽  
Alfredo Benso ◽  
Gianfranco Politano ◽  
Lars R Olsen

Designing multicolor antibody panels for flow cytometry is complex and time-consuming. Poorly designed panels can result in repeated rounds of optimization and irreproducible results due to spectral overlap between fluorochromes. However, few tools exist to help researchers when designing panels, and none automatically considers spectral overlap. Here we present Spectracular, a web server which utilizes a complexity optimization algorithm to suggest fluorochrome combinations with minimal or near-minimal spectral overlap. Spectracular is available at https://biosurf.org/spectracular.html.

2021 ◽  
Author(s):  
Helen Jäkel ◽  
Heiko Henning ◽  
Anne‐Marie Luther ◽  
Karl Rohn ◽  
Dagmar Waberski

2021 ◽  
Vol 6 (3) ◽  
pp. 121
Author(s):  
Alison Luce-Fedrow ◽  
Suchismita Chattopadhyay ◽  
Teik-Chye Chan ◽  
Gregory Pearson ◽  
John B. Patton ◽  
...  

The antigenic diversity of Orientia tsutsugamushi as well as the interstrain difference(s) associated with virulence in mice impose the necessity to dissect the host immune response. In this study we compared the host response in lethal and non-lethal murine models of O. tsutsugamushi infection using the two strains, Karp (New Guinea) and Woods (Australia). The models included the lethal model: Karp intraperitoneal (IP) challenge; and the nonlethal models: Karp intradermal (ID), Woods IP, and Woods ID challenges. We monitored bacterial trafficking to the liver, lung, spleen, kidney, heart, and blood, and seroconversion during the 21-day challenge. Bacterial trafficking to all organs was observed in both the lethal and nonlethal models of infection, with significant increases in average bacterial loads observed in the livers and hearts of the lethal model. Multicolor flow cytometry was utilized to analyze the CD4+ and CD8+ T cell populations and their intracellular production of the cytokines IFNγ, TNF, and IL2 (single, double, and triple combinations) associated with both the lethal and nonlethal murine models of infection. The lethal model was defined by a cytokine signature of double- (IFNγ-IL2) and triple-producing (IL2-TNF-IFNγ) CD4+ T-cell populations; no multifunctional signature was identified in the CD8+ T-cell populations associated with the lethal model. In the nonlethal model, the cytokine signature was predominated by CD4+ and CD8+ T-cell populations associated with single (IL2) and/or double (IL2-TNF) populations of producers. The cytokine signatures associated with our lethal model will become depletion targets in future experiments; those signatures associated with our nonlethal model are hypothesized to be related to the protective nature of the nonlethal challenges.


2018 ◽  
Vol 3 (4) ◽  
pp. 956-969 ◽  
Author(s):  
Kimberly A. Muczynski ◽  
Nicolae Leca ◽  
Arthur E. Anderson ◽  
Niamh Kieran ◽  
Susan K. Anderson

2020 ◽  
Vol 487 ◽  
pp. 112899
Author(s):  
Verónica Olivo Pimentel ◽  
Ala Yaromina ◽  
Damiënne Marcus ◽  
Ludwig J. Dubois ◽  
Philippe Lambin

2019 ◽  
Vol 142 (2) ◽  
pp. 113-119
Author(s):  
Martin Řádek ◽  
Eva Babuňková ◽  
Martin Špaček ◽  
Tomáš Kvasnička ◽  
Jan Kvasnička

Background/Aims: Endothelial progenitor cells (EPCs) and circulating endothelial cells (CECs) have been described as markers of endothelial damage and dysfunction in several diseases, including deep venous thrombosis. Their role in patients with known thrombophilia has not yet been evaluated. Both EPCs and CECs represent extremely rare cell populations. Therefore, it is essential to use standardized methods for their identification and quantification. Methods: In this study, we used multicolor flow cytometry to analyze the number of EPCs and CECs in patients with thrombophilia with or without a history of thrombosis. Patients with hematological malignancies after high-dose chemotherapy and patients with acute myocardial infarction were used as positive controls. Results: EPC and CEC immunophenotypes were determined as CD45dim/–CD34+CD146+CD133+ and CD45dim/–CD34+CD146+CD133–, respectively. Increased levels of endothelial cells were observed in positive control groups. No significant changes in the number of EPCs or CECs were detected in patients with thrombophilia compared to healthy controls. Conclusion: Our optimized multicolor flow cytometry method allows unambiguous identification and quantification of endothelial cells in the peripheral blood. Our results support previous studies showing that elevated levels of CECs could serve as an indicator of endothelial injury or dysfunction. Normal levels of CECs or EPCs were found in patients with thrombophilia.


2009 ◽  
Vol 131 (50) ◽  
pp. 18186-18190 ◽  
Author(s):  
Navin Varadarajan ◽  
Mark Pogson ◽  
George Georgiou ◽  
Brent L. Iverson

2015 ◽  
Author(s):  
Elena Ivanova ◽  
Robert E. Jones ◽  
Mark M. Awad ◽  
Mark A. Bittinger ◽  
Meghana M. Kulkarni ◽  
...  

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