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 Rv0467/icl1:

update plot	correlation	link to info on gene
Rv2470/glbO	(cc=0.7681)	info on Rv2470/glbO
Rv2907c/rimM	(cc=0.7502)	info on Rv2907c/rimM
Rv2518c/ldtB	(cc=0.7498)	info on Rv2518c/ldtB
Rv2359/zur	(cc=0.6834)	info on Rv2359/zur
Rv0011c/-	(cc=0.6695)	info on Rv0011c/-
Rv3588c/canB	(cc=0.6438)	info on Rv3588c/canB
Rv1324/-	(cc=0.6292)	info on Rv1324/-
Rv3490/otsA	(cc=0.6248)	info on Rv3490/otsA
Rv3228/-	(cc=0.6234)	info on Rv3228/-
Rv1432/-	(cc=0.623)	info on Rv1432/-

Correlation of Rv0467/icl1 with Rv2359/zur

Normalized LFCs for Rv0467/icl1:
(description and provenance of datasets)

	Rv0467/icl1	Rv2359/zur
Fe_supp_jason_reseq	0.182	0.598
low_pH_jason_reseq	-0.211	0.0
NO_jason_reseq	-0.69	0.0
B6_jason_reseq	-0.292	0.0
MHCII_jason_reseq	-0.257	0.0
Isoniazid02	0.201	-0.146
Rifampicin4	0.712	-1.21
Ethambutol3	0.59	1.156
Meropenem3	0.165	0.217
Vancomycin16	0.366	-1.552
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.586	-0.272
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.554	-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	1.765	0.797
DS01	0.0	-0.216
DS02	0.0	-0.414
DS04	0.194	-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	0.537	0.106
H37Rv_KO_Rv1272	0.0	0.227
H37Rv_KO_SugABC	0.0	0.159
H37Rv_KO_MbtN	0.196	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	1.77	0.992
delta_Rv3594	-0.193	-0.369
delta_Rv3717	-0.159	-0.303
delta_Rv3811	-0.391	-0.358
delta_Rv0954	0.65	2.396
PonA1	-0.304	0.876
EccD1_KO	0.0	1.003
EspI_KO	1.859	1.748
PE35_KO	2.917	2.917
PPE68_KO	2.678	3.59
glycerol2	-1.073	0.0
lignocerate	-0.933	0.0
oleate	-1.086	0.0
phosphatidylcholine	-1.073	0.0
acetate	0.136	0.0
glucAc	0.451	0.0
Rv0950ko	-1.182	-1.143
Rv1096ko	-2.434	-0.929
Rv3684ko	-1.284	-1.739
delta_otsA_trehalose	0.0	-0.218