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 Rv3032/-:

update plot	correlation	link to info on gene
Rv1208/gpgS	(cc=0.7693)	info on Rv1208/gpgS
Rv2130c/mshC	(cc=0.7094)	info on Rv2130c/mshC
Rv2907c/rimM	(cc=0.686)	info on Rv2907c/rimM
Rv2980/-	(cc=0.6653)	info on Rv2980/-
Rv1437/pgk	(cc=0.6545)	info on Rv1437/pgk
Rv1242/vapC33	(cc=0.6406)	info on Rv1242/vapC33
Rv1002c/-	(cc=0.6104)	info on Rv1002c/-
Rv2359/zur	(cc=0.5922)	info on Rv2359/zur
Rv2470/glbO	(cc=0.5878)	info on Rv2470/glbO
Rv1023/eno	(cc=0.5871)	info on Rv1023/eno

Correlation of Rv3032/- with Rv2359/zur

Normalized LFCs for Rv3032/-:
(description and provenance of datasets)

	Rv3032/-	Rv2359/zur
Fe_supp_jason_reseq	0.0	0.598
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.0	-0.146
Rifampicin4	0.0	-1.21
Ethambutol3	0.0	1.156
Meropenem3	0.0	0.217
Vancomycin16	0.0	-1.552
Rv2680_day32	0.249	0.0
H37Rv_KO_MarP	-0.151	-0.272
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	-0.385
cholesterol	0.0	0.435
AJ	0.0	-0.442
Bibs02	0.0	-0.348
Bibs02c	0.0	-0.191
BL6	0.0	-0.238
BL6a	0.0	-0.377
BXD01	0.0	-0.248
BXD010	0.0	0.107
BXD011	0.0	-0.243
BXD03	0.0	-0.258
BXD04	0.0	0.103
BXD05	0.0	-0.256
BXD06	0.0	-0.254
BXD07	0.0	-0.264
BXD08	0.0	-0.121
BXD09	0.0	-0.268
CAST	0.0	0.0
CCcont	0.285	0.797
DS01	0.0	-0.216
DS02	0.0	-0.414
DS04	0.0	-0.177
DS0c	0.0	-0.198
GP01	0.0	-0.188
GP02	0.0	-0.159
GP0c	0.0	-0.248
NOD	0.0	-0.428
NZO	0.0	-0.38
PWK	0.0	-0.374
H37Rv_KO_CtpC	0.0	-0.309
H37Rv_KO_CtpD	0.0	0.106
H37Rv_KO_Rv1272	0.0	0.227
H37Rv_KO_SugABC	0.0	0.159
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.0	0.476
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.766
secA2_input	0.806	0.992
delta_Rv3594	0.402	-0.369
delta_Rv3717	0.331	-0.303
delta_Rv3811	0.0	-0.358
delta_Rv0954	0.49	2.396
PonA1	0.0	0.876
EccD1_KO	0.378	1.003
EspI_KO	3.18	1.748
PE35_KO	2.739	2.917
PPE68_KO	1.872	3.59
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	0.0	-1.143
Rv1096ko	0.347	-0.929
Rv3684ko	1.055	-1.739
delta_otsA_trehalose	1.151	-0.218