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 Rv0698/-

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

	Rv1266c/pknH	Rv0698/-
Fe_supp_jason_reseq	0.112	-2.327
low_pH_jason_reseq	0.233	0.706
NO_jason_reseq	0.837	-0.155
B6_jason_reseq	-0.009	-2.577
MHCII_jason_reseq	0.698	-1.035
Isoniazid02	-0.028	-0.113
Rifampicin4	0.176	0.39
Ethambutol3	-0.095	0.336
Meropenem3	0.011	0.089
Vancomycin16	0.172	0.0
Rv2680_day32	0.277	1.157
H37Rv_KO_MarP	0.167	0.313
hypoxia_3wks	-0.199	-0.921
hypoxia_6wks	0.501	-1.059
glycerol	0.276	0.192
cholesterol	0.249	0.203
AJ	0.183	-0.118
Bibs02	0.75	-0.775
Bibs02c	0.5	-1.622
BL6	0.8	1.536
BL6a	0.34	-0.207
BXD01	0.347	0.911
BXD010	0.301	0.432
BXD011	0.547	0.233
BXD03	0.259	-0.069
BXD04	1.259	2.14
BXD05	0.674	0.835
BXD06	0.127	0.451
BXD07	0.375	1.134
BXD08	0.342	0.541
BXD09	0.336	-0.071
CAST	-0.11	-0.37
CCcont	0.307	2.126
DS01	0.236	0.527
DS02	0.23	0.654
DS04	0.611	0.354
DS0c	-0.269	0.809
GP01	-0.084	0.715
GP02	-0.189	-0.292
GP0c	-0.25	1.916
NOD	0.527	1.57
NZO	0.738	-0.321
PWK	0.514	0.274
H37Rv_KO_CtpC	-0.233	-0.261
H37Rv_KO_CtpD	-0.092	0.949
H37Rv_KO_Rv1272	-0.3	0.315
H37Rv_KO_SugABC	0.595	-0.669
H37Rv_KO_MbtN	1.017	0.098
Trans05	0.63	1.877
macrophage_unactivated	0.041	0.133
IL1	0.392	-0.128
Rapamycin	-0.021	-0.132
Tcell	0.169	0.521
GMCSF	0.547	-1.172
IFNab	-0.245	0.248
IFNg	-0.446	-0.355
IFNg_GMCSF1	-0.364	-0.135
Rv1432_day32	0.123	0.0
Rv1565c_day32	0.363	0.45
secA2_input	-0.891	-2.719
delta_Rv3594	-0.08	-0.922
delta_Rv3717	-0.35	-2.231
delta_Rv3811	-0.369	-0.107
delta_Rv0954	-0.056	-0.142
PonA1	-0.252	-1.196
EccD1_KO	0.201	-2.144
EspI_KO	-0.128	-0.827
PE35_KO	0.204	-0.128
PPE68_KO	-0.48	-0.141
glycerol2	0.143	2.221
lignocerate	0.946	2.498
oleate	0.22	-0.688
phosphatidylcholine	0.854	2.359
acetate	1.046	3.41
glucAc	0.701	2.902
Rv0950ko	0.332	-0.256
Rv1096ko	0.516	-0.528
Rv3684ko	0.586	-0.888
delta_otsA_trehalose	-0.3	1.38