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 Rv3190c/-:

update plot	correlation	link to info on gene
Rv1868/-	(cc=0.5045)	info on Rv1868/-
Rv1289/-	(cc=0.4947)	info on Rv1289/-
Rv1290A/-	(cc=0.476)	info on Rv1290A/-
Rv0264c/-	(cc=0.4724)	info on Rv0264c/-
Rv0278c/PE_PGRS3	(cc=0.4683)	info on Rv0278c/PE_PGRS3
Rv3136A/-	(cc=0.4605)	info on Rv3136A/-
Rv2958c/-	(cc=0.4567)	info on Rv2958c/-
Rv1803c/PE_PGRS32	(cc=0.456)	info on Rv1803c/PE_PGRS32
Rv2240c/-	(cc=0.4506)	info on Rv2240c/-
Rv1718/-	(cc=0.4417)	info on Rv1718/-

Correlation of Rv3190c/- with Rv2958c/-

Normalized LFCs for Rv3190c/-:
(description and provenance of datasets)

	Rv3190c/-	Rv2958c/-
Fe_supp_jason_reseq	0.447	0.218
low_pH_jason_reseq	-0.311	-0.591
NO_jason_reseq	0.071	-0.412
B6_jason_reseq	0.48	-0.317
MHCII_jason_reseq	1.004	0.082
Isoniazid02	0.271	0.674
Rifampicin4	0.233	0.103
Ethambutol3	0.465	0.818
Meropenem3	0.865	0.367
Vancomycin16	0.09	0.257
Rv2680_day32	0.64	0.459
H37Rv_KO_MarP	-0.261	0.464
hypoxia_3wks	-0.032	0.016
hypoxia_6wks	0.063	-0.495
glycerol	-0.257	-1.678
cholesterol	-0.706	-0.524
AJ	-0.634	0.212
Bibs02	-0.03	0.257
Bibs02c	-0.297	0.382
BL6	-0.074	-0.448
BL6a	-0.387	0.211
BXD01	-0.601	-0.022
BXD010	-0.021	0.164
BXD011	-0.249	0.071
BXD03	-0.192	-0.041
BXD04	0.005	0.179
BXD05	-0.204	0.198
BXD06	-0.416	-0.162
BXD07	-0.504	-0.105
BXD08	-0.301	0.008
BXD09	-0.561	-0.21
CAST	-0.048	0.092
CCcont	-0.269	-0.071
DS01	0.0	0.269
DS02	-0.12	0.263
DS04	0.015	0.548
DS0c	0.231	0.225
GP01	0.197	0.408
GP02	1.552	0.959
GP0c	-0.442	-0.35
NOD	-0.246	0.937
NZO	-0.025	0.475
PWK	-0.384	0.485
H37Rv_KO_CtpC	-0.367	0.377
H37Rv_KO_CtpD	0.369	0.694
H37Rv_KO_Rv1272	0.522	0.96
H37Rv_KO_SugABC	0.603	0.495
H37Rv_KO_MbtN	-0.071	0.425
Trans05	1.15	1.058
macrophage_unactivated	0.319	0.136
IL1	-0.303	-0.744
Rapamycin	0.19	-0.276
Tcell	-0.235	-0.306
GMCSF	0.232	-0.177
IFNab	-0.218	-0.414
IFNg	0.27	-0.179
IFNg_GMCSF1	-0.273	0.277
Rv1432_day32	0.377	0.365
Rv1565c_day32	-0.779	0.303
secA2_input	-0.631	-0.524
delta_Rv3594	-0.75	0.366
delta_Rv3717	-0.423	-0.198
delta_Rv3811	-0.303	0.26
delta_Rv0954	-0.109	-0.059
PonA1	-0.418	-0.108
EccD1_KO	0.691	0.28
EspI_KO	0.819	0.342
PE35_KO	0.782	0.586
PPE68_KO	0.611	0.394
glycerol2	0.513	0.509
lignocerate	0.749	0.6
oleate	-0.342	0.509
phosphatidylcholine	0.409	0.71
acetate	0.678	0.166
glucAc	0.872	0.194
Rv0950ko	-0.561	0.066
Rv1096ko	-0.184	-0.682
Rv3684ko	-0.432	-0.465
delta_otsA_trehalose	-0.227	0.014