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 Rv3521/-:

update plot	correlation	link to info on gene
Rv2705c/-	(cc=0.5441)	info on Rv2705c/-
Rv2495c/bkdC	(cc=0.5439)	info on Rv2495c/bkdC
Rv0941c/-	(cc=0.5384)	info on Rv0941c/-
Rv1361c/PPE19	(cc=0.5134)	info on Rv1361c/PPE19
Rv3831/-	(cc=0.4997)	info on Rv3831/-
Rv0403c/mmpS1	(cc=0.4972)	info on Rv0403c/mmpS1
Rv0576/-	(cc=0.4913)	info on Rv0576/-
Rv3558/PPE64	(cc=0.4819)	info on Rv3558/PPE64
Rv1616/-	(cc=0.4737)	info on Rv1616/-
Rv0972c/fadE12	(cc=0.4683)	info on Rv0972c/fadE12

Correlation of Rv3521/- with Rv2705c/-

Normalized LFCs for Rv3521/-:
(description and provenance of datasets)

	Rv3521/-	Rv2705c/-
Fe_supp_jason_reseq	-0.287	-1.179
low_pH_jason_reseq	-0.927	-0.888
NO_jason_reseq	0.339	0.806
B6_jason_reseq	-0.667	-0.564
MHCII_jason_reseq	-0.091	0.126
Isoniazid02	-0.22	-0.527
Rifampicin4	0.309	0.709
Ethambutol3	0.666	0.326
Meropenem3	-0.187	-0.308
Vancomycin16	1.059	0.435
Rv2680_day32	-0.058	-0.127
H37Rv_KO_MarP	0.524	0.368
hypoxia_3wks	0.231	0.163
hypoxia_6wks	-0.025	-0.236
glycerol	0.159	0.057
cholesterol	-0.219	-0.182
AJ	0.578	0.424
Bibs02	0.241	-0.474
Bibs02c	-0.147	0.12
BL6	0.325	-0.423
BL6a	0.044	0.284
BXD01	0.424	0.382
BXD010	0.455	0.551
BXD011	0.736	0.158
BXD03	0.672	0.254
BXD04	0.272	-0.075
BXD05	0.415	0.761
BXD06	0.342	0.545
BXD07	0.232	0.316
BXD08	1.005	0.475
BXD09	0.163	0.352
CAST	0.142	0.035
CCcont	-0.257	-0.623
DS01	0.156	0.207
DS02	0.566	0.369
DS04	0.804	0.298
DS0c	0.64	0.137
GP01	-0.032	0.376
GP02	0.832	0.633
GP0c	0.296	0.248
NOD	0.26	0.407
NZO	0.623	0.364
PWK	0.179	0.799
H37Rv_KO_CtpC	0.155	0.876
H37Rv_KO_CtpD	0.765	0.248
H37Rv_KO_Rv1272	1.102	0.897
H37Rv_KO_SugABC	0.614	0.846
H37Rv_KO_MbtN	-0.252	-0.867
Trans05	0.759	0.405
macrophage_unactivated	-0.331	-0.271
IL1	0.561	0.16
Rapamycin	0.684	-0.181
Tcell	0.283	-0.306
GMCSF	0.354	-0.082
IFNab	0.166	-0.154
IFNg	0.045	0.337
IFNg_GMCSF1	0.421	0.038
Rv1432_day32	-0.005	0.432
Rv1565c_day32	0.172	0.311
secA2_input	-0.041	-0.817
delta_Rv3594	0.194	0.182
delta_Rv3717	0.167	0.313
delta_Rv3811	0.106	0.116
delta_Rv0954	0.513	0.004
PonA1	0.16	-0.339
EccD1_KO	0.234	-0.01
EspI_KO	0.054	-0.254
PE35_KO	-0.146	-0.63
PPE68_KO	-0.048	-0.096
glycerol2	-0.149	0.759
lignocerate	-0.223	-0.287
oleate	0.103	1.093
phosphatidylcholine	0.207	0.413
acetate	-0.69	-0.141
glucAc	-0.429	-0.556
Rv0950ko	0.32	0.262
Rv1096ko	0.365	-0.431
Rv3684ko	0.763	0.265
delta_otsA_trehalose	-0.673	0.181