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ESSENTIALS: Transposon insertion sequencing analysis
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Supplementary data ESSENTIALS manuscript


S.pneumoniae R6 scaling
S.pneumoniae R6 scaling + repeatfiltering
S.pneumoniae R6 scaling + repeatfiltering + gene truncation
S.pneumoniae R6 scaling + repeatfiltering + gene truncation quantile normalized
S.pneumoniae R6 scaling + repeatfiltering + gene truncation TMM normalized
S.pneumoniae R6 scaling + repeatfiltering + gene truncation + Loess insertion bias correction TMM normalized

P. aeruginosa PAO1 scaling
P. aeruginosa PAO1 scaling + repeatfiltering
P. aeruginosa PAO1 scaling + repeatfiltering + gene truncation
P. aeruginosa PAO1 scaling + repeatfiltering + gene truncation quantile normalized
P. aeruginosa PAO1 scaling + repeatfiltering + gene truncation TMM normalized
P. aeruginosa PAO1 scaling + repeatfiltering + gene truncation + Loess insertion bias correction TMM normalized

S.pneumoniae R6 1 kb set for Figure 2
S.pneumoniae R6 synthetic test set conditional essentiality

S.pneumoniae TIGR4 essential genes
S. typhi Ty2 bile salt challenge
S. typhi Ty2 essential genes
H. influenzae essential genes and lung challenge

Supplementary data CO2 S. pneumoniae manuscript

S. pneumoniae essential genes under CO2 limitation

Supplementary data CO2 H.influenzae manuscript

H. influenzae essential genes under CO2 limitation

Supplementary data Moraxella adherence manuscript

Moraxella A549 adherent samples vs non-adherent samples
Moraxella A549 adherent samples vs control samples
Moraxella Detroit adherent samples vs non-adherent samples
Moraxella Detroit adherent samples vs control samples
Control samples only

Supplementary data S. pneumoniae Saliva Tn-seq adherence manuscript

S. pneumoniae Start vs 37 oC libraries
S. pneumoniae Start vs roomtemperature libraries
S.pneumoniae Start library

Supplementary data Moraxella serum resistance study

Moraxella Start Library only
Moraxella NHS vs NHS-HI 30 min
Moraxella NHS vs NHS-HI 60 min
Moraxella NHS-HI 0 vs 60 min

Supplementary data Haemophilus influenza factor H study

H. influenzae factor H

Supplementary data Tn-seq based antibiotics target discovery

S. pneumoniae R6
Moraxella catarrhalis BBH18
Haemophilus influenza RdKW20
S. pneumoniae TIGR4
Haemophilus influenzae 028NP

Supplementary data Haemophilus influenza neutrophil mediated killing study

H. influenzae neutrophil