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 Rv1360/-:

update plot	correlation	link to info on gene
Rv3327/-	(cc=0.5271)	info on Rv3327/-
Rv3219/whiB1	(cc=0.5142)	info on Rv3219/whiB1
Rv0999/-	(cc=0.5)	info on Rv0999/-
Rv0373c/-	(cc=0.4694)	info on Rv0373c/-
Rv3453/-	(cc=0.451)	info on Rv3453/-
Rv3775/lipE	(cc=0.4471)	info on Rv3775/lipE
Rv1860/apa	(cc=0.439)	info on Rv1860/apa
Rv0129c/fbpC	(cc=0.438)	info on Rv0129c/fbpC
Rv0862c/-	(cc=0.4371)	info on Rv0862c/-
Rv0361/-	(cc=0.4267)	info on Rv0361/-

Correlation of Rv1360/- with Rv0862c/-

Normalized LFCs for Rv1360/-:
(description and provenance of datasets)

	Rv1360/-	Rv0862c/-
Fe_supp_jason_reseq	-0.175	1.179
low_pH_jason_reseq	-0.99	-0.273
NO_jason_reseq	-0.32	0.845
B6_jason_reseq	0.169	0.795
MHCII_jason_reseq	0.366	0.73
Isoniazid02	-1.455	-0.54
Rifampicin4	-2.434	-1.164
Ethambutol3	-0.929	-0.573
Meropenem3	1.791	1.375
Vancomycin16	-1.937	-0.785
Rv2680_day32	0.253	0.423
H37Rv_KO_MarP	0.368	-0.155
hypoxia_3wks	0.235	-0.179
hypoxia_6wks	0.28	-0.731
glycerol	0.281	0.769
cholesterol	2.114	0.594
AJ	0.2	0.85
Bibs02	0.268	-0.474
Bibs02c	0.47	0.505
BL6	-0.114	0.26
BL6a	0.296	0.783
BXD01	-0.543	0.0
BXD010	-0.187	0.309
BXD011	-0.125	0.127
BXD03	0.031	1.202
BXD04	-0.326	-0.08
BXD05	0.183	0.842
BXD06	-0.195	0.158
BXD07	0.0	0.402
BXD08	-0.292	0.407
BXD09	-0.234	0.339
CAST	0.32	0.272
CCcont	0.109	0.733
DS01	0.445	0.648
DS02	0.093	0.597
DS04	0.072	1.003
DS0c	0.206	0.174
GP01	-0.235	0.652
GP02	0.366	-0.675
GP0c	-0.086	-0.205
NOD	0.488	0.789
NZO	-0.208	0.199
PWK	0.408	-0.216
H37Rv_KO_CtpC	-0.317	0.419
H37Rv_KO_CtpD	-0.061	0.387
H37Rv_KO_Rv1272	-0.527	0.167
H37Rv_KO_SugABC	0.172	0.889
H37Rv_KO_MbtN	-0.208	-0.137
Trans05	-0.07	-0.144
macrophage_unactivated	-0.035	0.42
IL1	-0.033	-0.068
Rapamycin	0.064	0.141
Tcell	-0.081	0.222
GMCSF	0.576	0.061
IFNab	-0.323	-0.07
IFNg	0.249	-0.061
IFNg_GMCSF1	-0.496	0.214
Rv1432_day32	-0.064	-0.046
Rv1565c_day32	0.114	0.741
secA2_input	0.016	1.67
delta_Rv3594	0.497	1.676
delta_Rv3717	-0.164	1.952
delta_Rv3811	-0.065	1.56
delta_Rv0954	0.516	1.324
PonA1	0.804	0.972
EccD1_KO	0.329	0.155
EspI_KO	0.034	0.807
PE35_KO	0.455	-0.07
PPE68_KO	0.115	-0.841
glycerol2	0.034	0.024
lignocerate	0.132	0.212
oleate	-0.106	-0.421
phosphatidylcholine	0.092	0.046
acetate	-0.366	0.081
glucAc	-0.192	0.326
Rv0950ko	0.121	0.078
Rv1096ko	-0.38	0.513
Rv3684ko	-0.033	-0.085
delta_otsA_trehalose	-0.424	-0.052