PMID- 37737980
OWN - NLM
STAT- MEDLINE
DCOM- 20230925
LR  - 20230926
IS  - 1940-6029 (Electronic)
IS  - 1064-3745 (Linking)
VI  - 2717
DP  - 2024
TI  - Phage Immunoprecipitation Sequencing (PhIP-Seq) for Analyzing Antibody Epitope 
      Repertoires Against Food Antigens.
PG  - 101-122
LID - 10.1007/978-1-0716-3453-0_7 [doi]
AB  - While thousands of food and environmental allergens have been reported, 
      conventional methods for allergy testing typically rely on measuring 
      immunoglobulin E (IgE) binding against panels of dozens to hundreds of antigens. 
      Beyond IgE, also the specificity of other Ig (sub-)classes such as IgG4, has 
      gained interest because of a potential protective role toward allergy.Phage 
      immunoprecipitation sequencing (PhIP-Seq) allows to study hundreds of thousands 
      of rationally selected peptide antigens and to resolve binding specificities of 
      different Ig classes. This technology combines synthetic DNA libraries encoding 
      antigens, with the display on the surface of T7 bacteriophages and 
      next-generation sequencing (NGS) for quantitative readouts. Thereby binding of 
      entire Ig repertoires can be measured to detect the exact epitopes of food 
      allergens and to study potential cross-reactivity.In this chapter, we provide a 
      summary of both the key experimental steps and various strategies for analyzing 
      PhIP-Seq datasets, as well as comparing the advantages and disadvantages of this 
      methodology for measuring antibody responses against food antigens.
CI  - (c) 2024. The Author(s), under exclusive license to Springer Science+Business 
      Media, LLC, part of Springer Nature.
FAU - Filimonova, Ioanna
AU  - Filimonova I
AD  - Medical University of Vienna, Center for Cancer Research, Vienna, Austria.
FAU - Innocenti, Gabriel
AU  - Innocenti G
AD  - Medical University of Vienna, Center for Cancer Research, Vienna, Austria.
FAU - Vogl, Thomas
AU  - Vogl T
AD  - Medical University of Vienna, Center for Cancer Research, Vienna, Austria. 
      thomas.vogl@meduniwien.ac.at.
LA  - eng
PT  - Journal Article
PL  - United States
TA  - Methods Mol Biol
JT  - Methods in molecular biology (Clifton, N.J.)
JID - 9214969
RN  - 0 (Epitopes)
RN  - 909C6UN66T (2-amino-1-methyl-6-phenylimidazo(4,5-b)pyridine)
RN  - 37341-29-0 (Immunoglobulin E)
RN  - 0 (Allergens)
SB  - IM
MH  - Humans
MH  - Epitopes/genetics
MH  - *Bacteriophages/genetics
MH  - *Hypersensitivity
MH  - Immunoglobulin E
MH  - Immunoprecipitation
MH  - Allergens/genetics
OTO - NOTNLM
OT  - Antibody epitope repertoires
OT  - Food allergy
OT  - High-throughput serology
OT  - Machine learning
OT  - PhIP-Seq
OT  - Phage immunoprecipitation sequencing
EDAT- 2023/09/22 12:43
MHDA- 2023/09/25 06:43
CRDT- 2023/09/22 11:09
PHST- 2023/09/25 06:43 [medline]
PHST- 2023/09/22 12:43 [pubmed]
PHST- 2023/09/22 11:09 [entrez]
AID - 10.1007/978-1-0716-3453-0_7 [doi]
PST - ppublish
SO  - Methods Mol Biol. 2024;2717:101-122. doi: 10.1007/978-1-0716-3453-0_7.