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 Rv0686/-

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

	Rv2332/mez	Rv0686/-
Fe_supp_jason_reseq	0.751	0.33
low_pH_jason_reseq	-0.437	-0.815
NO_jason_reseq	-0.076	-0.276
B6_jason_reseq	0.227	0.488
MHCII_jason_reseq	0.472	0.666
Isoniazid02	1.672	0.806
Rifampicin4	0.181	0.127
Ethambutol3	0.955	2.719
Meropenem3	0.319	-0.133
Vancomycin16	0.424	0.313
Rv2680_day32	0.305	-0.045
H37Rv_KO_MarP	0.356	0.402
hypoxia_3wks	0.363	-0.175
hypoxia_6wks	0.0	0.271
glycerol	-0.806	0.487
cholesterol	-0.336	-0.611
AJ	0.534	0.35
Bibs02	0.246	0.276
Bibs02c	0.091	0.474
BL6	-0.165	0.009
BL6a	-0.06	0.442
BXD01	-0.059	0.179
BXD010	-0.243	0.444
BXD011	0.103	0.502
BXD03	-0.4	0.172
BXD04	0.25	0.046
BXD05	-0.103	-0.047
BXD06	-0.041	0.044
BXD07	0.08	0.227
BXD08	-0.276	0.068
BXD09	0.225	-0.127
CAST	0.557	0.192
CCcont	-0.365	0.315
DS01	0.046	-0.082
DS02	-0.099	-0.298
DS04	0.423	-0.325
DS0c	-0.179	0.355
GP01	-0.279	0.279
GP02	-0.658	0.061
GP0c	-1.335	-0.218
NOD	0.747	1.232
NZO	0.552	0.262
PWK	0.364	0.706
H37Rv_KO_CtpC	-0.16	0.754
H37Rv_KO_CtpD	0.103	0.149
H37Rv_KO_Rv1272	0.208	0.516
H37Rv_KO_SugABC	0.444	0.055
H37Rv_KO_MbtN	0.074	0.393
Trans05	0.874	0.881
macrophage_unactivated	-0.3	0.325
IL1	-0.362	-0.418
Rapamycin	-0.752	-0.568
Tcell	-0.609	0.055
GMCSF	-0.752	-0.457
IFNab	-0.396	-1.094
IFNg	-1.101	-0.986
IFNg_GMCSF1	-0.927	-0.581
Rv1432_day32	0.81	0.413
Rv1565c_day32	0.376	0.299
secA2_input	-0.794	-0.54
delta_Rv3594	-0.257	0.381
delta_Rv3717	-0.614	0.442
delta_Rv3811	-0.228	0.052
delta_Rv0954	-0.497	-0.249
PonA1	0.433	-1.137
EccD1_KO	0.464	0.414
EspI_KO	0.707	0.066
PE35_KO	0.368	0.548
PPE68_KO	0.477	0.09
glycerol2	0.67	0.283
lignocerate	0.664	0.531
oleate	0.543	0.305
phosphatidylcholine	0.647	0.123
acetate	0.221	0.038
glucAc	0.187	0.135
Rv0950ko	-0.555	0.127
Rv1096ko	-0.79	-0.47
Rv3684ko	-1.294	-0.688
delta_otsA_trehalose	-0.092	0.603