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 Rv1056/-

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

	Rv2332/mez	Rv1056/-
Fe_supp_jason_reseq	0.751	-0.448
low_pH_jason_reseq	-0.437	-0.36
NO_jason_reseq	-0.076	0.06
B6_jason_reseq	0.227	0.026
MHCII_jason_reseq	0.472	0.501
Isoniazid02	1.672	1.148
Rifampicin4	0.181	-0.246
Ethambutol3	0.955	-0.136
Meropenem3	0.319	0.567
Vancomycin16	0.424	-0.313
Rv2680_day32	0.305	-0.226
H37Rv_KO_MarP	0.356	0.861
hypoxia_3wks	0.363	-0.447
hypoxia_6wks	0.0	-0.173
glycerol	-0.806	-0.465
cholesterol	-0.336	-0.341
AJ	0.534	0.348
Bibs02	0.246	-0.619
Bibs02c	0.091	0.035
BL6	-0.165	0.031
BL6a	-0.06	-0.253
BXD01	-0.059	-0.361
BXD010	-0.243	-0.308
BXD011	0.103	-0.204
BXD03	-0.4	-0.473
BXD04	0.25	-0.537
BXD05	-0.103	-0.068
BXD06	-0.041	-0.274
BXD07	0.08	0.006
BXD08	-0.276	0.18
BXD09	0.225	-0.383
CAST	0.557	0.047
CCcont	-0.365	-0.225
DS01	0.046	0.421
DS02	-0.099	0.789
DS04	0.423	0.332
DS0c	-0.179	0.13
GP01	-0.279	0.012
GP02	-0.658	0.403
GP0c	-1.335	-1.404
NOD	0.747	-0.01
NZO	0.552	0.056
PWK	0.364	-0.566
H37Rv_KO_CtpC	-0.16	0.441
H37Rv_KO_CtpD	0.103	-0.092
H37Rv_KO_Rv1272	0.208	0.261
H37Rv_KO_SugABC	0.444	1.086
H37Rv_KO_MbtN	0.074	0.494
Trans05	0.874	0.367
macrophage_unactivated	-0.3	-0.11
IL1	-0.362	0.021
Rapamycin	-0.752	-0.648
Tcell	-0.609	0.222
GMCSF	-0.752	-0.515
IFNab	-0.396	-0.686
IFNg	-1.101	-0.673
IFNg_GMCSF1	-0.927	-0.415
Rv1432_day32	0.81	0.305
Rv1565c_day32	0.376	0.046
secA2_input	-0.794	-0.982
delta_Rv3594	-0.257	-0.052
delta_Rv3717	-0.614	-0.186
delta_Rv3811	-0.228	-0.277
delta_Rv0954	-0.497	-0.252
PonA1	0.433	0.383
EccD1_KO	0.464	0.303
EspI_KO	0.707	0.684
PE35_KO	0.368	0.583
PPE68_KO	0.477	0.528
glycerol2	0.67	0.517
lignocerate	0.664	0.704
oleate	0.543	0.383
phosphatidylcholine	0.647	0.718
acetate	0.221	0.023
glucAc	0.187	0.17
Rv0950ko	-0.555	0.054
Rv1096ko	-0.79	0.072
Rv3684ko	-1.294	-0.226
delta_otsA_trehalose	-0.092	0.244