TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3321c/vapB44:

update plot	correlation	link to info on gene
Rv0268c/-	(cc=0.4792)	info on Rv0268c/-
Rv2351c/plcA	(cc=0.4533)	info on Rv2351c/plcA
Rv3064c/-	(cc=0.4512)	info on Rv3064c/-
Rv3420c/rimI	(cc=0.4423)	info on Rv3420c/rimI
Rv0507/mmpL2	(cc=0.4379)	info on Rv0507/mmpL2
Rv0387c/-	(cc=0.4251)	info on Rv0387c/-
Rv1863c/-	(cc=0.4237)	info on Rv1863c/-
Rv2641/cadI	(cc=0.4145)	info on Rv2641/cadI
Rv2771c/-	(cc=0.4103)	info on Rv2771c/-
Rv3763/lpqH	(cc=0.4096)	info on Rv3763/lpqH

Correlation of Rv3321c/vapB44 with Rv0268c/-

Normalized LFCs for Rv3321c/vapB44:
(description and provenance of datasets)

	Rv3321c/vapB44	Rv0268c/-
Fe_supp_jason_reseq	1.88	0.332
low_pH_jason_reseq	-0.82	-0.627
NO_jason_reseq	0.097	0.297
B6_jason_reseq	0.505	0.281
MHCII_jason_reseq	1.109	0.594
Isoniazid02	0.329	0.163
Rifampicin4	0.81	-0.141
Ethambutol3	2.563	0.035
Meropenem3	0.532	0.119
Vancomycin16	0.395	-0.109
Rv2680_day32	0.2	0.023
H37Rv_KO_MarP	0.471	0.333
hypoxia_3wks	0.072	0.144
hypoxia_6wks	-0.737	-0.14
glycerol	-1.182	-0.48
cholesterol	0.486	-0.402
AJ	-1.294	0.178
Bibs02	0.567	0.335
Bibs02c	0.391	0.208
BL6	-0.197	0.157
BL6a	0.709	0.112
BXD01	-0.154	-0.171
BXD010	0.135	0.118
BXD011	0.056	0.368
BXD03	0.527	0.073
BXD04	0.172	-0.048
BXD05	0.977	0.527
BXD06	-0.177	0.144
BXD07	-0.18	0.357
BXD08	0.535	0.238
BXD09	0.098	0.299
CAST	0.34	0.389
CCcont	-0.052	-0.037
DS01	-0.335	-0.041
DS02	-0.673	0.254
DS04	-0.037	0.34
DS0c	-0.071	0.555
GP01	-0.026	0.181
GP02	-1.594	-0.37
GP0c	-0.334	0.16
NOD	0.568	0.277
NZO	-0.819	0.532
PWK	-0.006	0.327
H37Rv_KO_CtpC	-0.079	-0.024
H37Rv_KO_CtpD	2.057	0.811
H37Rv_KO_Rv1272	-0.441	0.146
H37Rv_KO_SugABC	-0.09	0.047
H37Rv_KO_MbtN	0.396	-0.238
Trans05	0.132	0.507
macrophage_unactivated	-0.925	0.18
IL1	-1.246	0.187
Rapamycin	-0.049	-0.009
Tcell	-0.495	-0.059
GMCSF	0.607	0.346
IFNab	0.704	0.018
IFNg	0.008	-0.112
IFNg_GMCSF1	0.339	0.635
Rv1432_day32	-0.302	0.008
Rv1565c_day32	1.068	-0.103
secA2_input	-0.778	-0.041
delta_Rv3594	0.3	-0.333
delta_Rv3717	0.721	-0.332
delta_Rv3811	0.236	-0.288
delta_Rv0954	-0.349	0.236
PonA1	0.31	-0.021
EccD1_KO	-0.724	-0.171
EspI_KO	-0.237	-0.645
PE35_KO	-1.167	-1.062
PPE68_KO	-1.718	-0.682
glycerol2	0.839	0.514
lignocerate	0.539	0.413
oleate	1.16	0.798
phosphatidylcholine	0.873	0.338
acetate	-0.352	-0.273
glucAc	0.965	-0.14
Rv0950ko	0.811	0.956
Rv1096ko	0.615	0.422
Rv3684ko	-0.013	0.445
delta_otsA_trehalose	3.088	0.742