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 Rv1268c/-:

update plot	correlation	link to info on gene
Rv1125/-	(cc=0.5538)	info on Rv1125/-
Rv1419/-	(cc=0.5532)	info on Rv1419/-
Rv3329/-	(cc=0.501)	info on Rv3329/-
Rv0934/pstS1	(cc=0.4673)	info on Rv0934/pstS1
Rv1169c/lipX	(cc=0.4658)	info on Rv1169c/lipX
Rv0343/iniC	(cc=0.4649)	info on Rv0343/iniC
Rv0940c/-	(cc=0.4299)	info on Rv0940c/-
Rv0413/mutT3	(cc=0.4295)	info on Rv0413/mutT3
Rv3525c/-	(cc=0.4287)	info on Rv3525c/-
Rv3572/-	(cc=0.4278)	info on Rv3572/-

Correlation of Rv1268c/- with Rv3572/-

Normalized LFCs for Rv1268c/-:
(description and provenance of datasets)

	Rv1268c/-	Rv3572/-
Fe_supp_jason_reseq	-0.802	-0.139
low_pH_jason_reseq	0.244	-0.264
NO_jason_reseq	0.339	-0.202
B6_jason_reseq	-0.594	0.012
MHCII_jason_reseq	-0.153	0.547
Isoniazid02	-1.286	-3.923
Rifampicin4	-0.23	0.401
Ethambutol3	-1.557	-3.468
Meropenem3	-1.628	-3.484
Vancomycin16	-0.952	-1.318
Rv2680_day32	-0.462	-0.799
H37Rv_KO_MarP	-0.034	0.941
hypoxia_3wks	0.251	0.279
hypoxia_6wks	0.522	1.142
glycerol	-0.196	0.749
cholesterol	-0.381	-0.787
AJ	0.77	-0.741
Bibs02	0.925	-0.204
Bibs02c	-0.285	0.197
BL6	0.18	0.576
BL6a	0.083	-0.191
BXD01	-0.266	-0.693
BXD010	-0.324	0.129
BXD011	0.744	2.982
BXD03	-0.245	-0.526
BXD04	-0.044	-0.158
BXD05	0.076	-1.114
BXD06	0.104	-0.679
BXD07	-0.398	-0.752
BXD08	-0.021	-0.617
BXD09	-0.044	-0.081
CAST	0.008	-0.083
CCcont	-0.866	-0.521
DS01	-0.009	-0.228
DS02	0.186	-0.594
DS04	-0.378	0.119
DS0c	0.291	0.405
GP01	-0.62	-0.374
GP02	-1.484	-0.715
GP0c	0.059	-0.506
NOD	0.068	-0.805
NZO	0.205	-1.108
PWK	0.125	-1.043
H37Rv_KO_CtpC	0.213	0.153
H37Rv_KO_CtpD	-1.787	0.952
H37Rv_KO_Rv1272	0.352	-1.486
H37Rv_KO_SugABC	-1.647	-1.973
H37Rv_KO_MbtN	-1.324	-0.38
Trans05	0.467	0.072
macrophage_unactivated	-0.701	0.3
IL1	-0.234	0.249
Rapamycin	-0.242	0.037
Tcell	-0.375	0.196
GMCSF	0.124	-0.795
IFNab	-0.015	0.254
IFNg	0.088	0.879
IFNg_GMCSF1	-0.427	-0.534
Rv1432_day32	0.167	0.636
Rv1565c_day32	0.06	-0.186
secA2_input	-1.007	1.705
delta_Rv3594	-0.922	-0.838
delta_Rv3717	-0.615	-0.25
delta_Rv3811	-1.096	-0.641
delta_Rv0954	0.447	-0.098
PonA1	-0.152	0.457
EccD1_KO	0.349	0.375
EspI_KO	0.143	-0.354
PE35_KO	-0.175	-0.058
PPE68_KO	0.25	-0.032
glycerol2	-0.056	-1.211
lignocerate	-0.17	-0.806
oleate	0.245	-0.251
phosphatidylcholine	0.283	-0.588
acetate	-0.037	-0.386
glucAc	-0.416	-0.778
Rv0950ko	-0.202	-0.16
Rv1096ko	0.296	0.787
Rv3684ko	-0.02	-0.216
delta_otsA_trehalose	-0.685	-0.685