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 Rv2332/mez:

update plot	correlation	link to info on gene
Rv3018c/PPE46	(cc=0.6556)	info on Rv3018c/PPE46
Rv2958c/-	(cc=0.6158)	info on Rv2958c/-
Rv3136A/-	(cc=0.5801)	info on Rv3136A/-
Rv1056/-	(cc=0.5729)	info on Rv1056/-
Rv1614/lgt	(cc=0.5638)	info on Rv1614/lgt
Rv0846c/-	(cc=0.551)	info on Rv0846c/-
Rv1182/papA3	(cc=0.5508)	info on Rv1182/papA3
Rv0686/-	(cc=0.5378)	info on Rv0686/-
Rv2517c/-	(cc=0.5354)	info on Rv2517c/-
Rv3784/-	(cc=0.5243)	info on Rv3784/-

Correlation of Rv2332/mez with Rv3784/-

Normalized LFCs for Rv2332/mez:
(description and provenance of datasets)

	Rv2332/mez	Rv3784/-
Fe_supp_jason_reseq	0.751	0.006
low_pH_jason_reseq	-0.437	-0.898
NO_jason_reseq	-0.076	-0.21
B6_jason_reseq	0.227	0.092
MHCII_jason_reseq	0.472	0.297
Isoniazid02	1.672	0.688
Rifampicin4	0.181	-0.138
Ethambutol3	0.955	1.0
Meropenem3	0.319	0.948
Vancomycin16	0.424	0.066
Rv2680_day32	0.305	0.337
H37Rv_KO_MarP	0.356	0.03
hypoxia_3wks	0.363	-0.04
hypoxia_6wks	0.0	0.092
glycerol	-0.806	0.522
cholesterol	-0.336	0.186
AJ	0.534	0.546
Bibs02	0.246	0.0
Bibs02c	0.091	0.588
BL6	-0.165	0.22
BL6a	-0.06	0.455
BXD01	-0.059	0.05
BXD010	-0.243	0.168
BXD011	0.103	0.112
BXD03	-0.4	-0.091
BXD04	0.25	0.291
BXD05	-0.103	-0.244
BXD06	-0.041	0.22
BXD07	0.08	-0.032
BXD08	-0.276	0.132
BXD09	0.225	0.236
CAST	0.557	0.506
CCcont	-0.365	0.043
DS01	0.046	0.185
DS02	-0.099	0.495
DS04	0.423	-0.07
DS0c	-0.179	0.176
GP01	-0.279	0.273
GP02	-0.658	0.114
GP0c	-1.335	-0.022
NOD	0.747	1.71
NZO	0.552	0.363
PWK	0.364	0.482
H37Rv_KO_CtpC	-0.16	0.437
H37Rv_KO_CtpD	0.103	0.656
H37Rv_KO_Rv1272	0.208	0.346
H37Rv_KO_SugABC	0.444	0.607
H37Rv_KO_MbtN	0.074	0.892
Trans05	0.874	0.842
macrophage_unactivated	-0.3	0.413
IL1	-0.362	-0.51
Rapamycin	-0.752	0.077
Tcell	-0.609	-0.222
GMCSF	-0.752	-0.235
IFNab	-0.396	-0.187
IFNg	-1.101	0.094
IFNg_GMCSF1	-0.927	0.248
Rv1432_day32	0.81	0.623
Rv1565c_day32	0.376	-0.316
secA2_input	-0.794	-0.726
delta_Rv3594	-0.257	-0.494
delta_Rv3717	-0.614	-0.488
delta_Rv3811	-0.228	-0.175
delta_Rv0954	-0.497	-0.552
PonA1	0.433	-0.545
EccD1_KO	0.464	-0.135
EspI_KO	0.707	0.225
PE35_KO	0.368	-0.152
PPE68_KO	0.477	-0.33
glycerol2	0.67	0.737
lignocerate	0.664	0.811
oleate	0.543	0.777
phosphatidylcholine	0.647	0.817
acetate	0.221	0.243
glucAc	0.187	0.267
Rv0950ko	-0.555	0.166
Rv1096ko	-0.79	-0.621
Rv3684ko	-1.294	-0.606
delta_otsA_trehalose	-0.092	-0.267