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 Rv2854/-:

update plot	correlation	link to info on gene
Rv1075c/-	(cc=0.5395)	info on Rv1075c/-
Rv0837c/-	(cc=0.5222)	info on Rv0837c/-
Rv1976c/-	(cc=0.4611)	info on Rv1976c/-
Rv0982/mprB	(cc=0.451)	info on Rv0982/mprB
Rv2042c/-	(cc=0.4489)	info on Rv2042c/-
Rv2180c/-	(cc=0.4462)	info on Rv2180c/-
Rv1638A/-	(cc=0.4454)	info on Rv1638A/-
Rv3392c/cmaA1	(cc=0.4349)	info on Rv3392c/cmaA1
Rv1149/-	(cc=0.4282)	info on Rv1149/-
Rv0461/-	(cc=0.4258)	info on Rv0461/-

Correlation of Rv2854/- with Rv0461/-

Normalized LFCs for Rv2854/-:
(description and provenance of datasets)

	Rv2854/-	Rv0461/-
Fe_supp_jason_reseq	-0.189	0.341
low_pH_jason_reseq	-0.485	0.027
NO_jason_reseq	-0.457	0.15
B6_jason_reseq	-0.093	0.173
MHCII_jason_reseq	0.78	0.809
Isoniazid02	-0.627	-0.893
Rifampicin4	0.547	0.942
Ethambutol3	0.963	0.61
Meropenem3	-1.072	-0.132
Vancomycin16	0.082	-0.817
Rv2680_day32	-0.161	0.367
H37Rv_KO_MarP	-0.443	1.28
hypoxia_3wks	0.447	-0.096
hypoxia_6wks	-0.123	-0.328
glycerol	-0.455	0.255
cholesterol	-0.48	0.336
AJ	0.163	0.077
Bibs02	-0.449	-0.519
Bibs02c	-0.196	0.047
BL6	0.248	-0.569
BL6a	0.0	0.07
BXD01	-0.168	-0.041
BXD010	0.119	-0.247
BXD011	-0.494	-0.224
BXD03	-0.238	-0.152
BXD04	0.326	0.138
BXD05	0.545	-0.264
BXD06	-0.21	-0.579
BXD07	0.097	-0.047
BXD08	0.053	0.559
BXD09	-0.094	-0.175
CAST	-0.976	-0.309
CCcont	-0.561	-0.248
DS01	0.094	-0.214
DS02	-0.09	-0.03
DS04	0.136	0.306
DS0c	-0.222	-0.093
GP01	-1.208	-0.795
GP02	-1.538	0.389
GP0c	-0.616	-0.365
NOD	-0.483	-0.05
NZO	-0.204	-0.056
PWK	-0.831	-0.438
H37Rv_KO_CtpC	0.621	0.248
H37Rv_KO_CtpD	-0.507	-0.111
H37Rv_KO_Rv1272	-0.598	-0.71
H37Rv_KO_SugABC	-0.742	-0.066
H37Rv_KO_MbtN	-0.296	-0.487
Trans05	-0.417	-0.301
macrophage_unactivated	0.732	0.698
IL1	-0.282	-0.133
Rapamycin	0.239	0.249
Tcell	0.075	0.156
GMCSF	-0.349	0.573
IFNab	-0.142	0.221
IFNg	0.62	0.174
IFNg_GMCSF1	0.412	-0.214
Rv1432_day32	-0.196	0.305
Rv1565c_day32	0.859	0.938
secA2_input	0.402	0.066
delta_Rv3594	0.052	0.278
delta_Rv3717	0.793	0.576
delta_Rv3811	1.034	0.247
delta_Rv0954	1.358	1.28
PonA1	1.193	1.09
EccD1_KO	0.329	0.148
EspI_KO	-0.148	0.359
PE35_KO	-0.312	-0.099
PPE68_KO	0.054	0.154
glycerol2	-0.652	0.633
lignocerate	-0.783	0.017
oleate	0.011	0.645
phosphatidylcholine	-0.588	0.426
acetate	-0.716	0.175
glucAc	-1.548	0.216
Rv0950ko	0.678	0.051
Rv1096ko	0.679	0.271
Rv3684ko	0.383	0.95
delta_otsA_trehalose	-2.484	-0.165