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 Rv1861/-

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

	Rv0403c/mmpS1	Rv1861/-
Fe_supp_jason_reseq	0.043	-0.117
low_pH_jason_reseq	-0.535	-1.655
NO_jason_reseq	0.344	0.428
B6_jason_reseq	-2.182	-1.122
MHCII_jason_reseq	-0.931	-0.956
Isoniazid02	-0.153	-0.723
Rifampicin4	0.122	-0.284
Ethambutol3	-0.152	0.428
Meropenem3	-0.15	1.029
Vancomycin16	0.305	-0.342
Rv2680_day32	-0.918	0.683
H37Rv_KO_MarP	0.079	-0.428
hypoxia_3wks	0.905	0.63
hypoxia_6wks	-0.198	1.165
glycerol	-2.319	-2.422
cholesterol	-0.398	-0.936
AJ	-0.079	0.155
Bibs02	0.854	0.057
Bibs02c	0.136	-1.555
BL6	-0.141	-0.072
BL6a	0.722	-0.35
BXD01	0.757	0.581
BXD010	0.411	0.628
BXD011	0.87	0.659
BXD03	1.436	0.255
BXD04	0.891	0.521
BXD05	0.582	-0.009
BXD06	0.821	0.903
BXD07	0.524	0.9
BXD08	0.862	0.989
BXD09	0.778	0.753
CAST	0.15	0.31
CCcont	-0.285	-0.188
DS01	0.325	0.445
DS02	0.337	-0.199
DS04	1.098	0.604
DS0c	0.482	0.696
GP01	0.647	0.859
GP02	1.58	1.048
GP0c	0.391	0.809
NOD	-0.187	0.861
NZO	0.529	0.334
PWK	0.415	0.527
H37Rv_KO_CtpC	0.807	1.449
H37Rv_KO_CtpD	0.656	1.112
H37Rv_KO_Rv1272	0.592	0.338
H37Rv_KO_SugABC	0.938	1.671
H37Rv_KO_MbtN	-0.329	0.74
Trans05	1.176	0.734
macrophage_unactivated	0.335	0.12
IL1	-0.543	-0.617
Rapamycin	-0.908	0.0
Tcell	0.283	-0.192
GMCSF	-0.544	-0.396
IFNab	-0.723	-0.453
IFNg	-0.187	-0.363
IFNg_GMCSF1	-1.496	-0.167
Rv1432_day32	-0.089	0.386
Rv1565c_day32	-0.344	0.297
secA2_input	-1.406	-0.194
delta_Rv3594	-0.17	-0.11
delta_Rv3717	-0.278	-0.41
delta_Rv3811	-0.109	-0.556
delta_Rv0954	0.654	0.417
PonA1	0.494	-0.129
EccD1_KO	-0.783	-0.046
EspI_KO	0.602	0.22
PE35_KO	-0.309	-0.064
PPE68_KO	-0.166	0.352
glycerol2	0.161	-0.149
lignocerate	-0.567	-0.505
oleate	0.457	0.411
phosphatidylcholine	0.245	-0.101
acetate	-1.2	-0.427
glucAc	-1.626	-1.002
Rv0950ko	0.163	1.061
Rv1096ko	-0.971	-0.196
Rv3684ko	-0.278	-1.055
delta_otsA_trehalose	-0.474	0.247