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 movie 1) (supp movie 2) (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 movie) (supp info)

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

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 movie 1) (supp movie 2) (supp movie 3) (supp info)

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) (fly movie) (urchin movie) (zebrafish movie) (chicken movie) (mouse movie) (supp info)