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 Rv3819/-

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

	Rv1266c/pknH	Rv3819/-
Fe_supp_jason_reseq	0.112	-0.451
low_pH_jason_reseq	0.233	-0.833
NO_jason_reseq	0.837	-0.452
B6_jason_reseq	-0.009	-0.8
MHCII_jason_reseq	0.698	-0.487
Isoniazid02	-0.028	-0.799
Rifampicin4	0.176	-0.255
Ethambutol3	-0.095	-0.342
Meropenem3	0.011	-0.285
Vancomycin16	0.172	-0.249
Rv2680_day32	0.277	0.188
H37Rv_KO_MarP	0.167	1.153
hypoxia_3wks	-0.199	-1.348
hypoxia_6wks	0.501	-0.942
glycerol	0.276	-0.705
cholesterol	0.249	-1.165
AJ	0.183	-1.706
Bibs02	0.75	-0.816
Bibs02c	0.5	-0.321
BL6	0.8	1.018
BL6a	0.34	-0.603
BXD01	0.347	0.406
BXD010	0.301	0.566
BXD011	0.547	-0.777
BXD03	0.259	-0.581
BXD04	1.259	0.28
BXD05	0.674	-0.295
BXD06	0.127	-0.446
BXD07	0.375	0.602
BXD08	0.342	0.382
BXD09	0.336	-0.58
CAST	-0.11	0.756
CCcont	0.307	1.057
DS01	0.236	0.736
DS02	0.23	-0.148
DS04	0.611	0.843
DS0c	-0.269	-1.501
GP01	-0.084	-2.323
GP02	-0.189	-0.576
GP0c	-0.25	-2.26
NOD	0.527	2.603
NZO	0.738	0.47
PWK	0.514	1.017
H37Rv_KO_CtpC	-0.233	-0.401
H37Rv_KO_CtpD	-0.092	0.763
H37Rv_KO_Rv1272	-0.3	-0.833
H37Rv_KO_SugABC	0.595	-0.316
H37Rv_KO_MbtN	1.017	-0.854
Trans05	0.63	-0.605
macrophage_unactivated	0.041	0.956
IL1	0.392	-1.922
Rapamycin	-0.021	-1.703
Tcell	0.169	0.476
GMCSF	0.547	-1.584
IFNab	-0.245	-1.542
IFNg	-0.446	-1.732
IFNg_GMCSF1	-0.364	-2.19
Rv1432_day32	0.123	0.374
Rv1565c_day32	0.363	0.556
secA2_input	-0.891	-1.446
delta_Rv3594	-0.08	-0.304
delta_Rv3717	-0.35	-1.016
delta_Rv3811	-0.369	0.586
delta_Rv0954	-0.056	0.129
PonA1	-0.252	-0.527
EccD1_KO	0.201	0.724
EspI_KO	-0.128	0.248
PE35_KO	0.204	-0.362
PPE68_KO	-0.48	0.624
glycerol2	0.143	1.651
lignocerate	0.946	2.557
oleate	0.22	-0.556
phosphatidylcholine	0.854	2.018
acetate	1.046	4.972
glucAc	0.701	2.696
Rv0950ko	0.332	0.148
Rv1096ko	0.516	1.215
Rv3684ko	0.586	0.514
delta_otsA_trehalose	-0.3	1.218