Key resources table

REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
RA5-22	BEI Resources	Cat# NR-44222
Rabbit anti-NA polyclonal antibody	Jon Yewdell; Brooke et al, 2014	N/A
NA2-1C1	BEI Resources	Cat# NR-50239
H36-26	Jon Yewdell; Brooke et al, 2014	Clone H35-26
H17-L2	Jon Yewdell; Brooke et al, 2014	Clone H17-L2
Bacterial and virus strains
A/Puerto Rico/8/34/Mount Sinai(H1N1)	Adolfo Garcia Sastre; Martínez-Sobrido and García-Sastre, 2010	N/A
MegaX DH10B T1	Invitrogen	Cat# C640003
Chemicals, peptides, and recombinant proteins
2′-(4-Methylumbelliferyl)-α-D-N-acetylneuraminic acid sodium salt hydrate	Sigma-Aldrich	Cat# M8639
3’-SLN-PEG3-biotin	Sussex Research	Cat# BT000000
MES hydrate	Sigma	Cat# M5287
jetPRIME	Polyplus Transfection	Cat# 89129
Critical commercial assays
HiSpeed Plasmid Midi Kit	Qiagen	Cat# 12643
T4 DNA Ligase	New England Biolabs	Cat# M0202
SuperScript III	Invitrogen	Cat# 18080051
Phusion High-Fidelity DNA Polymerase	ThermoFisher	Cat# F530
PrimeSTAR Max DNA Polymerase	Takara Bio	Cat# R045
KOD Hot Start DNA Polymerase	Novagen	Cat# 71086
Bis-Tris protein gel	Invitrogen	Cat# NW04120BOX
PVDF membrane	Invitrogen	Cat# IB24001
Deposited data
Sequencing data of DMS experiment	This paper	SRA: PRJNA842406
Sequencing data of antibody selection experiment	This paper	SRA: PRJNA842406
Experimental models: Cell lines
Madin-Darby canine kidney (MDCK) cells	Jon Yewdell; Kosik et al, 2018.	doi:10.1128/JVI.02284-12
Human embryonic kidney HEK293T	Joanna Shisler; Randall et al, 2014	N/A
Oligonucleotides
HA1 DMS primers, see Table S2	IDT	N/A
HA1 barcode primers for NovaSeq, see Table S3	IDT	N/A
MBTUni-12 primer ACGCGTGATCAGCAAAAGCAGG	IDT	N/A
MBTUni-13 primer ACGCGTGATCAGTAGAAACAAGG	IDT	N/A
Software and algorithms
HA1 Deep mutation scanning	This paper	https://github.com/Wangyiquan95/HA1 DOI: 10.5281/zenodo.7021429
DeepSNV pipeline	Gerstung et al., 2014, 2012	https://github.com/BROOKELAB/deepSNV_R3.6 DOI: 10.5281/zenodo.7020444
GetArea	Fraczkiewicz and Braun, 1998	http://curie.utmb.edu/getarea.html