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 Rv0830/-:

update plot	correlation	link to info on gene
Rv3109/moaA1	(cc=0.5729)	info on Rv3109/moaA1
Rv1087A/-	(cc=0.5419)	info on Rv1087A/-
Rv3738c/PPE66	(cc=0.5249)	info on Rv3738c/PPE66
Rv2267c/-	(cc=0.5247)	info on Rv2267c/-
Rv0755A/-	(cc=0.5195)	info on Rv0755A/-
Rv2424c/-	(cc=0.5054)	info on Rv2424c/-
Rv2958c/-	(cc=0.4928)	info on Rv2958c/-
Rv2092c/helY	(cc=0.4855)	info on Rv2092c/helY
Rv2957/-	(cc=0.4806)	info on Rv2957/-
Rv1916/aceAb	(cc=0.4798)	info on Rv1916/aceAb

Correlation of Rv0830/- with Rv2958c/-

Normalized LFCs for Rv0830/-:
(description and provenance of datasets)

	Rv0830/-	Rv2958c/-
Fe_supp_jason_reseq	0.148	0.218
low_pH_jason_reseq	-0.279	-0.591
NO_jason_reseq	0.357	-0.412
B6_jason_reseq	0.739	-0.317
MHCII_jason_reseq	0.519	0.082
Isoniazid02	-1.003	0.674
Rifampicin4	0.417	0.103
Ethambutol3	0.027	0.818
Meropenem3	-0.343	0.367
Vancomycin16	-0.223	0.257
Rv2680_day32	0.08	0.459
H37Rv_KO_MarP	0.042	0.464
hypoxia_3wks	-0.435	0.016
hypoxia_6wks	-0.159	-0.495
glycerol	-0.859	-1.678
cholesterol	-0.552	-0.524
AJ	0.481	0.212
Bibs02	0.367	0.257
Bibs02c	0.202	0.382
BL6	0.037	-0.448
BL6a	0.141	0.211
BXD01	0.167	-0.022
BXD010	-0.117	0.164
BXD011	-0.097	0.071
BXD03	-0.453	-0.041
BXD04	-0.127	0.179
BXD05	0.288	0.198
BXD06	-0.154	-0.162
BXD07	-0.126	-0.105
BXD08	0.018	0.008
BXD09	-0.004	-0.21
CAST	0.21	0.092
CCcont	-0.295	-0.071
DS01	-0.258	0.269
DS02	0.274	0.263
DS04	-0.103	0.548
DS0c	0.204	0.225
GP01	0.444	0.408
GP02	1.298	0.959
GP0c	-0.138	-0.35
NOD	0.205	0.937
NZO	0.285	0.475
PWK	0.459	0.485
H37Rv_KO_CtpC	0.477	0.377
H37Rv_KO_CtpD	0.225	0.694
H37Rv_KO_Rv1272	0.56	0.96
H37Rv_KO_SugABC	0.499	0.495
H37Rv_KO_MbtN	-0.078	0.425
Trans05	0.684	1.058
macrophage_unactivated	0.237	0.136
IL1	-0.564	-0.744
Rapamycin	-0.292	-0.276
Tcell	0.274	-0.306
GMCSF	0.185	-0.177
IFNab	-0.19	-0.414
IFNg	-0.211	-0.179
IFNg_GMCSF1	-0.066	0.277
Rv1432_day32	0.023	0.365
Rv1565c_day32	0.242	0.303
secA2_input	-0.204	-0.524
delta_Rv3594	-0.341	0.366
delta_Rv3717	-0.507	-0.198
delta_Rv3811	-0.656	0.26
delta_Rv0954	-0.682	-0.059
PonA1	-0.446	-0.108
EccD1_KO	0.967	0.28
EspI_KO	0.034	0.342
PE35_KO	-0.067	0.586
PPE68_KO	0.643	0.394
glycerol2	0.409	0.509
lignocerate	0.269	0.6
oleate	0.668	0.509
phosphatidylcholine	0.655	0.71
acetate	-0.136	0.166
glucAc	-0.005	0.194
Rv0950ko	0.28	0.066
Rv1096ko	-0.401	-0.682
Rv3684ko	-0.229	-0.465
delta_otsA_trehalose	0.579	0.014