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 Rv0403c/mmpS1:

update plot	correlation	link to info on gene
Rv1059/-	(cc=0.6955)	info on Rv1059/-
Rv3378c/-	(cc=0.6371)	info on Rv3378c/-
Rv1861/-	(cc=0.6291)	info on Rv1861/-
Rv1504c/-	(cc=0.6203)	info on Rv1504c/-
Rv1949c/-	(cc=0.6195)	info on Rv1949c/-
Rv2107/PE22	(cc=0.6134)	info on Rv2107/PE22
Rv3429/PPE59	(cc=0.6068)	info on Rv3429/PPE59
Rv2735c/-	(cc=0.6)	info on Rv2735c/-
Rv3143/-	(cc=0.5926)	info on Rv3143/-
Rv3152/nuoH	(cc=0.5892)	info on Rv3152/nuoH

Correlation of Rv0403c/mmpS1 with Rv1949c/-

Normalized LFCs for Rv0403c/mmpS1:
(description and provenance of datasets)

	Rv0403c/mmpS1	Rv1949c/-
Fe_supp_jason_reseq	0.043	0.311
low_pH_jason_reseq	-0.535	-0.689
NO_jason_reseq	0.344	0.239
B6_jason_reseq	-2.182	-0.692
MHCII_jason_reseq	-0.931	-0.969
Isoniazid02	-0.153	-0.113
Rifampicin4	0.122	-0.011
Ethambutol3	-0.152	0.047
Meropenem3	-0.15	0.629
Vancomycin16	0.305	-0.377
Rv2680_day32	-0.918	0.057
H37Rv_KO_MarP	0.079	0.48
hypoxia_3wks	0.905	0.303
hypoxia_6wks	-0.198	-0.547
glycerol	-2.319	-0.888
cholesterol	-0.398	0.519
AJ	-0.079	-0.044
Bibs02	0.854	0.258
Bibs02c	0.136	-0.341
BL6	-0.141	-0.195
BL6a	0.722	-0.142
BXD01	0.757	0.438
BXD010	0.411	-0.041
BXD011	0.87	0.194
BXD03	1.436	0.242
BXD04	0.891	0.926
BXD05	0.582	0.283
BXD06	0.821	0.033
BXD07	0.524	0.226
BXD08	0.862	0.742
BXD09	0.778	0.274
CAST	0.15	0.085
CCcont	-0.285	-0.573
DS01	0.325	0.074
DS02	0.337	0.041
DS04	1.098	-0.675
DS0c	0.482	-0.402
GP01	0.647	0.819
GP02	1.58	0.762
GP0c	0.391	-0.221
NOD	-0.187	-0.072
NZO	0.529	0.038
PWK	0.415	-0.013
H37Rv_KO_CtpC	0.807	0.887
H37Rv_KO_CtpD	0.656	0.158
H37Rv_KO_Rv1272	0.592	0.568
H37Rv_KO_SugABC	0.938	0.301
H37Rv_KO_MbtN	-0.329	0.92
Trans05	1.176	1.347
macrophage_unactivated	0.335	0.139
IL1	-0.543	-0.792
Rapamycin	-0.908	-0.344
Tcell	0.283	-0.15
GMCSF	-0.544	0.364
IFNab	-0.723	-0.369
IFNg	-0.187	0.024
IFNg_GMCSF1	-1.496	-0.264
Rv1432_day32	-0.089	0.068
Rv1565c_day32	-0.344	0.019
secA2_input	-1.406	-0.753
delta_Rv3594	-0.17	0.044
delta_Rv3717	-0.278	-0.059
delta_Rv3811	-0.109	-0.123
delta_Rv0954	0.654	-0.69
PonA1	0.494	-0.125
EccD1_KO	-0.783	0.158
EspI_KO	0.602	-0.08
PE35_KO	-0.309	0.099
PPE68_KO	-0.166	0.067
glycerol2	0.161	0.115
lignocerate	-0.567	-0.438
oleate	0.457	0.644
phosphatidylcholine	0.245	0.409
acetate	-1.2	-1.159
glucAc	-1.626	-1.522
Rv0950ko	0.163	0.075
Rv1096ko	-0.971	-0.995
Rv3684ko	-0.278	-0.305
delta_otsA_trehalose	-0.474	-0.338