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Which dyes are best for tracing neurons?

Posted January 16, 2020


Answer

Fluorescent styryl dyes (also referred to as FM or RH dyes) are principally used in neuronal tracing and functional imaging applications.

The table below shows the range of available neuronal tracers, their excitation and emission maxima, and their staining properties to assist you in selecting the best tracer for imaging neurons.


Product Name Ex/Em (nm) Standard Filter Set Chroma Filter1 Omega Filter2 Unit Size Price Cat#
DiOC2(3) iodide [3,3-Diethyloxacarbocyanine iodide] 482/500 FITC Filter Set 31001-Chroma XF23-Omega 25 mg $79 22038
DiOC3(3) iodide [3,3-Dipropyloxacarbocyanine iodide] 482/500 FITC Filter Set 31001-Chroma XF23-Omega 25 mg $79 22039
DiOC7(3) iodide [3,3-Diheptyloxacarbocyanine iodide] 482/500 FITC Filter Set 31001-Chroma XF23-Omega 25 mg $79 22040
DiOC16(3) perchlorate [3,3-Dihexadecyloxacarbocyanine perchlorate] 482/500 FITC Filter Set 31001-Chroma XF23-Omega 25 mg $79 22042
DiOC5(3) iodide [3,3-Dipentyloxacarbocyanine iodide] 482/500 FITC Filter Set 31001-Chroma XF23-Omega 25 mg $79 22045
DiOC6(3) iodide [3,3-Dihexyloxacarbocyanine iodide] 482/500 FITC Filter Set 31001-Chroma XF23-Omega 25 mg $79 22046
DiO perchlorate [3,3-Dioctadecyloxacarbocyanine perchlorate] 482/500 FITC Filter Set 31001-Chroma XF23-Omega 25 mg $79 22066
MM 1-43 [N-(3-Triethylammoniumpropyl)-4-(4-(dibutylamino)styryl)pyridinium dibromide] 473/579 TRITC Filter Set 31002-Chroma XF32-Omega 1 mg $100 21483
DiIC12(3) perchlorate [1,1-Didodecyl-3,3,3,3-tetramethylindocarbocyanine perchlorate] 549/563 TRITC Filter Set 31002-Chroma XF32-Omega 25 mg $79 22035
DiIC16(3) perchlorate [1,1-Dihexadecyl-3,3,3,3-tetramethylindocarbocyanine perchlorate] 549/563 TRITC Filter Set 31002-Chroma XF32-Omega 25 mg $79 22044
DiIC12(3)-DS [1,1-Diododecyl-3,3,3,3-tetramethylindocarbocyanine-5,5-disulfonic acid] 549/563 TRITC Filter Set 31002-Chroma XF32-Omega 5 mg $100 22050
DiIC18(3)-DS [1,1-Dioctadecyl-3,3,3,3-tetramethylindocarbocyanine-5,5-disulfonic acid] 549/563 TRITC Filter Set 31002-Chroma XF32-Omega 5 mg $100 22052
DiSC2(3) [3,3-Diethylthiacarbocyanine iodide] 560/571 TRITC Filter Set 31002-Chroma XF32-Omega 25 mg $100 22073
DiI iodide [1,1-Dioctadecyl-3,3,3,3- tetramethylindocarbocyanine iodide] 549/563 TRITC Filter Set 31002-Chroma XF32-Omega 100 mg $79 22101
DiI perchlorate [1,1-Dioctadecyl-3,3,3,3-tetramethylindocarbocyanine perchlorate] *CAS 41085-99-8* 549/563 TRITC Filter Set 31002-Chroma XF32-Omega 100 mg $79 22102
DiI triflate [1,1-Dioctadecyl-3,3,3,3-tetramethylindocarbocyanine triflate] 549/563 TRITC Filter Set 31002-Chroma XF32-Omega 100 mg $205 22103
MM 2-10 [N-(3-Triethylammoniumpropyl)-4-(4-(diethylamino)styryl)pyridinium dibromide] 506/620 Texas Red Filter Set 31024-Chroma XF21-Omega 1 mg $100 21489
DiA [4-(4-(Dihexadecylamino)styryl)-N-methylpyridinium iodide] 491/611 Texas Red Filter Set 31024-Chroma XF21-Omega 25 mg $79 22030
DiD labeling solution [1,1-Dioctadecyl-3,3,3,3-tetramethylindodicarbocyanine] *5 mM DMSO solution* 645/663 Cy5 Filter Set 31023-Chroma XF47-Omega 10 mL $205 22033
DiIC12(5)-DS [1,1-Diododecyl-3,3,3,3-tetramethylindodicarbocyanine-5,5-disulfonic acid] 650/670 Cy5 Filter Set 31023-Chroma XF47-Omega 5 mg $100 22051
DiIC18(5)-DS [1,1-Dioctadecyl-3,3,3,3-tetramethylindodicarbocyanine-5,5-disulfonic acid] 652/668 Cy5 Filter Set 31023-Chroma XF47-Omega 5 mg $100 22054
DiIC1(5) iodide [1,1,3,3,3,3-Hexamethylindodicarbocyanine iodide] 640/657 Cy5 Filter Set 31023-Chroma XF47-Omega 25 mg $79 22056
DiSC3(5) [3,3-Dipropylthiadicarbocyanine iodide] 660/675 Cy5 Filter Set 31023-Chroma XF47-Omega 25 mg $100 22076
MM 4-64 [N-(3-Triethylammoniumpropyl)-4-(6-(4-(diethylamino)phenyl)hexatrienyl)pyridinium dibromide] 558/734 Cy5.5® Filter Set N/A N/A 1 mg $205 21487
DiR iodide [1,1-dioctadecyl-3,3,3,3-tetramethylindotricarbocyanine iodide] 754/778 Cy7 Filter Set 41009-Chroma XF112-Omega 25 mg $79 220703
Note:
  1. Chroma filters are supplied by Chroma TechnologyCorp. (www.chroma.com).
  2. Omega filters are supplied by Omega Optical, Inc. (www.omegafilters.com).
  3. Fluorescence emission of DiR iodide is invisible to human eyes and must be detected using a CCD camera or other infrared-sensitive detector.
Additional resources

DiIC18(3)-DS Product Page

DiI perchlorate Product Page

MM 1-43 Product Page

MM 4-64 Product Page