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 Rv3327/-

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

	Rv1360/-	Rv3327/-
Fe_supp_jason_reseq	-0.175	-1.02
low_pH_jason_reseq	-0.99	0.432
NO_jason_reseq	-0.32	-0.118
B6_jason_reseq	0.169	0.114
MHCII_jason_reseq	0.366	0.012
Isoniazid02	-1.455	-0.765
Rifampicin4	-2.434	-0.799
Ethambutol3	-0.929	-0.218
Meropenem3	1.791	1.569
Vancomycin16	-1.937	-0.592
Rv2680_day32	0.253	0.044
H37Rv_KO_MarP	0.368	0.134
hypoxia_3wks	0.235	0.49
hypoxia_6wks	0.28	0.217
glycerol	0.281	-0.307
cholesterol	2.114	1.415
AJ	0.2	0.407
Bibs02	0.268	0.163
Bibs02c	0.47	0.158
BL6	-0.114	0.388
BL6a	0.296	0.149
BXD01	-0.543	-0.025
BXD010	-0.187	-0.247
BXD011	-0.125	-0.103
BXD03	0.031	-0.261
BXD04	-0.326	-0.16
BXD05	0.183	0.437
BXD06	-0.195	-0.346
BXD07	0.0	0.147
BXD08	-0.292	-0.32
BXD09	-0.234	-0.313
CAST	0.32	0.672
CCcont	0.109	-0.288
DS01	0.445	0.123
DS02	0.093	0.02
DS04	0.072	0.274
DS0c	0.206	0.24
GP01	-0.235	-0.214
GP02	0.366	0.377
GP0c	-0.086	0.555
NOD	0.488	0.159
NZO	-0.208	0.264
PWK	0.408	0.344
H37Rv_KO_CtpC	-0.317	0.069
H37Rv_KO_CtpD	-0.061	0.012
H37Rv_KO_Rv1272	-0.527	-0.168
H37Rv_KO_SugABC	0.172	0.732
H37Rv_KO_MbtN	-0.208	-0.327
Trans05	-0.07	-0.458
macrophage_unactivated	-0.035	-0.391
IL1	-0.033	-0.148
Rapamycin	0.064	-0.132
Tcell	-0.081	-0.74
GMCSF	0.576	-0.23
IFNab	-0.323	-0.738
IFNg	0.249	-0.056
IFNg_GMCSF1	-0.496	0.066
Rv1432_day32	-0.064	0.821
Rv1565c_day32	0.114	0.193
secA2_input	0.016	-0.15
delta_Rv3594	0.497	-0.358
delta_Rv3717	-0.164	0.019
delta_Rv3811	-0.065	-0.699
delta_Rv0954	0.516	-0.2
PonA1	0.804	0.027
EccD1_KO	0.329	0.845
EspI_KO	0.034	0.519
PE35_KO	0.455	0.551
PPE68_KO	0.115	0.48
glycerol2	0.034	-0.025
lignocerate	0.132	-0.399
oleate	-0.106	0.242
phosphatidylcholine	0.092	-0.067
acetate	-0.366	0.048
glucAc	-0.192	-0.294
Rv0950ko	0.121	-0.157
Rv1096ko	-0.38	0.781
Rv3684ko	-0.033	0.272
delta_otsA_trehalose	-0.424	0.987