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*ATP quantification
*[[Immunoassays]]<ref>{{Cite journal|last1=Ashour|first1=Mohamed-Bassem A.|last2=Gee|first2=Shirley J.|last3=Hammock|first3=Bruce D.|date=1987-11-01|title=Use of a 96-well microplate reader for measuring routine enzyme activities|url=https://dx.doi.org/10.1016/0003-2697%2887%2990585-9|journal=Analytical Biochemistry|language=en|volume=166|issue=2|pages=353–360|doi=10.1016/0003-2697(87)90585-9|pmid=3434778 |issn=0003-2697}}</ref>
*[[High throughput screening]] of compounds and targets in drug discovery (Labeled Alpha Screen on most instruments)<ref>{{cite web | url=https://www.bmglabtech.com/en/alphascreen/ | title=AlphaScreen | BMG LABTECH }}</ref>
*Bead-Based Epitope Assay<ref>{{cite journal |last1=Suprun |first1=Maria |last2=Getts |first2=Robert |last3=Raghunathan |first3=Rohit |last4=Grishina |first4=Galina |last5=Witmer |first5=Marc |last6=Gimenez |first6=Gustavo |last7=Sampson |first7=Hugh A. |last8=Suárez-Fariñas |first8=Mayte |title=Novel Bead-Based Epitope Assay is a sensitive and reliable tool for profiling epitope-specific antibody repertoire in food allergy |journal=Scientific Reports |date=5 December 2019 |volume=9 |issue=1 |page=18425 |doi=10.1038/s41598-019-54868-7 |pmid=31804555 |pmc=6895130 |bibcode=2019NatSR...918425S }}</ref>
*Cellular Uptake of nanoparticles<ref>{{cite journal | doi=10.1038/s41598-022-24480-3 | title=Quantifying fluorescent nanoparticle uptake in mammalian cells using a plate reader | year=2022 | last1=Shin | first1=Hye Ji | last2=Kwak | first2=Minjeong | last3=Joo | first3=Sihwa | last4=Lee | first4=Ji Youn | journal=Scientific Reports | volume=12 | issue=1 | page=20146 | pmid=36418509 | pmc=9684140 | bibcode=2022NatSR..1220146S }}</ref>
While "plate reader" usually refers to the devices described above, many variations are available. Some examples of other devices working with the microplate format are:
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