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 Rv3292/-:

update plot	correlation	link to info on gene
Rv0605/-	(cc=0.5317)	info on Rv0605/-
Rv0070c/glyA2	(cc=0.5035)	info on Rv0070c/glyA2
Rv2802c/-	(cc=0.4931)	info on Rv2802c/-
Rv0650/-	(cc=0.4771)	info on Rv0650/-
Rv0811c/-	(cc=0.4613)	info on Rv0811c/-
Rv3628/ppa	(cc=0.461)	info on Rv3628/ppa
Rv0589/mce2A	(cc=0.4511)	info on Rv0589/mce2A
Rv3081/-	(cc=0.4501)	info on Rv3081/-
Rv2896c/-	(cc=0.446)	info on Rv2896c/-
Rv2240c/-	(cc=0.4456)	info on Rv2240c/-

Correlation of Rv3292/- with Rv0605/-

Normalized LFCs for Rv3292/-:
(description and provenance of datasets)

	Rv3292/-	Rv0605/-
Fe_supp_jason_reseq	-0.412	-0.995
low_pH_jason_reseq	-0.343	-0.028
NO_jason_reseq	0.213	-0.215
B6_jason_reseq	0.563	-0.115
MHCII_jason_reseq	-0.023	0.297
Isoniazid02	0.872	-0.274
Rifampicin4	0.23	0.195
Ethambutol3	0.409	-0.371
Meropenem3	0.229	-0.589
Vancomycin16	0.608	-0.119
Rv2680_day32	0.055	-0.777
H37Rv_KO_MarP	0.861	0.391
hypoxia_3wks	-0.534	-0.159
hypoxia_6wks	-0.522	-0.478
glycerol	0.913	0.127
cholesterol	0.668	0.526
AJ	0.035	-0.207
Bibs02	-0.087	-0.038
Bibs02c	0.529	0.708
BL6	1.039	0.372
BL6a	0.191	0.194
BXD01	0.153	0.018
BXD010	-0.04	-0.298
BXD011	-0.146	1.443
BXD03	0.24	0.08
BXD04	-0.174	-0.205
BXD05	0.357	0.244
BXD06	0.129	0.109
BXD07	0.237	0.549
BXD08	-0.052	0.241
BXD09	-0.055	0.128
CAST	-0.47	-0.319
CCcont	0.369	0.223
DS01	-0.055	-0.099
DS02	0.285	0.117
DS04	0.408	-0.115
DS0c	0.536	0.165
GP01	0.926	0.185
GP02	0.467	0.345
GP0c	0.289	0.099
NOD	0.216	0.22
NZO	-0.754	0.152
PWK	0.03	-0.041
H37Rv_KO_CtpC	-0.427	-0.399
H37Rv_KO_CtpD	0.652	1.48
H37Rv_KO_Rv1272	-0.699	-0.807
H37Rv_KO_SugABC	-0.665	0.127
H37Rv_KO_MbtN	-0.164	-0.069
Trans05	0.18	-0.126
macrophage_unactivated	0.0	0.306
IL1	1.02	1.323
Rapamycin	0.181	1.335
Tcell	-0.039	0.316
GMCSF	0.127	0.919
IFNab	0.677	0.493
IFNg	0.219	0.583
IFNg_GMCSF1	0.364	0.786
Rv1432_day32	-0.308	0.348
Rv1565c_day32	-0.752	0.022
secA2_input	-0.454	0.011
delta_Rv3594	-1.069	-0.503
delta_Rv3717	-0.137	0.186
delta_Rv3811	-0.193	-0.778
delta_Rv0954	-0.491	-0.32
PonA1	-0.957	-0.83
EccD1_KO	0.411	0.714
EspI_KO	0.439	0.553
PE35_KO	0.155	1.275
PPE68_KO	-0.106	0.733
glycerol2	0.465	0.502
lignocerate	1.041	1.359
oleate	-0.118	-0.024
phosphatidylcholine	0.518	0.926
acetate	1.17	0.638
glucAc	0.728	1.051
Rv0950ko	0.274	0.847
Rv1096ko	1.128	1.056
Rv3684ko	1.585	1.205
delta_otsA_trehalose	0.885	-0.234