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 Rv1266c/pknH:

update plot	correlation	link to info on gene
Rv3421c/-	(cc=0.4671)	info on Rv3421c/-
Rv0055/rpsR1	(cc=0.4604)	info on Rv0055/rpsR1
Rv2582/ppiB	(cc=0.4509)	info on Rv2582/ppiB
Rv0940c/-	(cc=0.4354)	info on Rv0940c/-
Rv3819/-	(cc=0.4267)	info on Rv3819/-
Rv2119/-	(cc=0.4104)	info on Rv2119/-
Rv3529c/-	(cc=0.3979)	info on Rv3529c/-
Rv3147/nuoC	(cc=0.3914)	info on Rv3147/nuoC
Rv0698/-	(cc=0.3894)	info on Rv0698/-
Rv0207c/-	(cc=0.3871)	info on Rv0207c/-

Correlation of Rv1266c/pknH with Rv2119/-

Normalized LFCs for Rv1266c/pknH:
(description and provenance of datasets)

	Rv1266c/pknH	Rv2119/-
Fe_supp_jason_reseq	0.112	0.362
low_pH_jason_reseq	0.233	-0.837
NO_jason_reseq	0.837	0.16
B6_jason_reseq	-0.009	0.739
MHCII_jason_reseq	0.698	0.235
Isoniazid02	-0.028	-0.028
Rifampicin4	0.176	0.176
Ethambutol3	-0.095	-0.083
Meropenem3	0.011	-0.787
Vancomycin16	0.172	-0.024
Rv2680_day32	0.277	-0.497
H37Rv_KO_MarP	0.167	-0.12
hypoxia_3wks	-0.199	-0.774
hypoxia_6wks	0.501	0.236
glycerol	0.276	0.155
cholesterol	0.249	-0.227
AJ	0.183	0.034
Bibs02	0.75	-0.498
Bibs02c	0.5	-0.629
BL6	0.8	0.572
BL6a	0.34	-0.133
BXD01	0.347	-0.109
BXD010	0.301	0.182
BXD011	0.547	0.14
BXD03	0.259	0.573
BXD04	1.259	0.288
BXD05	0.674	0.139
BXD06	0.127	0.231
BXD07	0.375	0.171
BXD08	0.342	0.564
BXD09	0.336	0.031
CAST	-0.11	-0.379
CCcont	0.307	0.357
DS01	0.236	0.38
DS02	0.23	-0.096
DS04	0.611	0.042
DS0c	-0.269	0.349
GP01	-0.084	-0.26
GP02	-0.189	-0.018
GP0c	-0.25	-0.33
NOD	0.527	-0.117
NZO	0.738	-0.029
PWK	0.514	-0.072
H37Rv_KO_CtpC	-0.233	0.0
H37Rv_KO_CtpD	-0.092	0.481
H37Rv_KO_Rv1272	-0.3	-0.479
H37Rv_KO_SugABC	0.595	0.457
H37Rv_KO_MbtN	1.017	0.252
Trans05	0.63	-0.54
macrophage_unactivated	0.041	0.069
IL1	0.392	-0.75
Rapamycin	-0.021	-0.672
Tcell	0.169	0.701
GMCSF	0.547	0.383
IFNab	-0.245	-0.686
IFNg	-0.446	-0.607
IFNg_GMCSF1	-0.364	-1.046
Rv1432_day32	0.123	-0.282
Rv1565c_day32	0.363	-0.158
secA2_input	-0.891	-0.698
delta_Rv3594	-0.08	-0.259
delta_Rv3717	-0.35	-0.293
delta_Rv3811	-0.369	-0.085
delta_Rv0954	-0.056	-0.274
PonA1	-0.252	-0.171
EccD1_KO	0.201	0.559
EspI_KO	-0.128	0.0
PE35_KO	0.204	0.831
PPE68_KO	-0.48	0.973
glycerol2	0.143	0.874
lignocerate	0.946	0.997
oleate	0.22	-0.147
phosphatidylcholine	0.854	0.856
acetate	1.046	1.839
glucAc	0.701	1.391
Rv0950ko	0.332	-0.154
Rv1096ko	0.516	-0.311
Rv3684ko	0.586	-0.337
delta_otsA_trehalose	-0.3	-0.682