HCR hairpin
References

Mapping a multiplexed zoo of mRNA expression
Harry M.T. Choi, Colby R. Calvert, Naeem Husain, David Huss, Julius C. Barsi, Benjamin E. Deverman, Ryan C. Hunter, Mihoko Kato, S. Melanie Lee, Anna C. T. Abelin, Adam Z. Rosenthal, Omar S. Akbari, Yuwei Li, Bruce A. Hay, Paul W. Sternberg, Paul H. Patterson, Eric H. Davidson, Sarkis K. Mazmanian, David A. Prober, Matt van de Rijn, Jared R. Leadbetter, Dianne K. Newman, Carol Readhead, Marianne E. Bronner, Barbara Wold, Rusty Lansford, Tatjana Sauka-Spengler, Scott E. Fraser and Niles A. Pierce
Development, 143:3632-3637, 2016.
(pdf, supp info, movies: fruit fly, sea urchin, zebrafish, chicken, mouse)

Single-molecule RNA detection at depth via hybridization chain reaction and tissue hydrogel embedding and clearing
Sheel Shah, Eric Lubeck, Maayan Schwarzkopf, Ting-Fang He, Alon Greenbaum, Chang Ho Sohn, Antti Lignell, Harry M.T. Choi, Viviana Gradinaru, Niles A. Pierce and Long Cai
Development, 143:2862-2867, 2016.
(pdf, supp info, movie 1, movie 2, movie 3)

Multiplexed miRNA northern blots via hybridization chain reaction
Maayan Schwarzkopf and Niles A. Pierce
Nucleic Acids Res, 44(15):e129, 2016.
(pdf, supp info)

Next-generation in situ hybridization chain reaction: higher gain, lower cost, greater durability
Harry M.T. Choi, Victor A. Beck, and Niles A. Pierce
ACS Nano, 8(5):4284-4294, 2014.
(pdf, supp info, movie)

Programmable in situ amplification for multiplexed imaging of mRNA expression
Harry M.T. Choi, Joann Y. Chang, Le A. Trinh, Jennifer E. Padilla, Scott E. Fraser, and Niles A. Pierce
Nature Biotechnology, 28:1208–1212, 2010.
(pdf, supp info, supp movie 1, supp movie 2)