Abbreviations2xYT
Double Yeast Tryptone, a rich bacterial growth medium
CDR
Complementarity-Determining Region
CDR1
Complementarity-Determining Region 1
CDR2
Complementarity-Determining Region 2
CDR3
Complementarity-Determining Region 3
CDRH3
Third Heavy Chain Complementarity-Determining Region
ELISA
Enzyme-Linked Immunosorbent Assay
Fab
Fragment Antigen Binding
GRAVY
Grand Average of Hydropathicity
HRP
Horseradish Peroxidase
IMAC
Immobilized Nickel Affinity Chromatography
IPTG
Isopropyl β-D-1-thiogalactopyranoside
KM13
Trypsin-sensitive M13 phage
MPBS
Milk Powder in Phosphate Buffer Saline
NGS
Next Generation Sequencing
ONT
Oxford Nanopore Technologies
ONT-UMIs
Oxford Nanopore Technologies sequencing with Unique Molecular Identifiers
PEG
Polyethylene Glycol 6000
PBS
Phosphate Buffer Saline
PBST
PBS with 0,05% Tween 20
PCR
Polymerase Chain Reaction
scFv
Single Chain Variable Fragment
sdAb
Single-domain Antibody
TBS-T
Tris-buffered saline with Tween 20
TG1
A strain of E. coli used expressing F' pilus
UMIs
Unique Molecular Identifiers
VH
Heavy Chain Variable Region
VL
Light Chain Variable Region
Keywords
Antibody phage-display
Oxford Nanopore Technologies
High-accuracy long-read sequencing
Unique Molecular Identifiers (UMIs)
Diversity monitoring
Enrichment monitoring
Rare binder recovery
Data availability
Code is available at https://gitlab.gbar.dtu.dk/laebgroup/optimized_ont_umi. Raw sequencing data available upon request.
© 2024 The Authors. Published by Elsevier B.V.
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