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 Rv3304/-:

update plot	correlation	link to info on gene
Rv2645/-	(cc=0.4444)	info on Rv2645/-
Rv3777/-	(cc=0.4319)	info on Rv3777/-
Rv3463/-	(cc=0.4139)	info on Rv3463/-
Rv2334/cysK1	(cc=0.3777)	info on Rv2334/cysK1
Rv0302/-	(cc=0.3773)	info on Rv0302/-
Rv2232/ptkA	(cc=0.3741)	info on Rv2232/ptkA
Rv2571c/-	(cc=0.3738)	info on Rv2571c/-
Rv0695/-	(cc=0.3659)	info on Rv0695/-
Rv1033c/trcR	(cc=0.3617)	info on Rv1033c/trcR
Rv0927c/-	(cc=0.3591)	info on Rv0927c/-

Correlation of Rv3304/- with Rv1033c/trcR

Normalized LFCs for Rv3304/-:
(description and provenance of datasets)

	Rv3304/-	Rv1033c/trcR
Fe_supp_jason_reseq	0.35	0.638
low_pH_jason_reseq	1.206	-0.097
NO_jason_reseq	-1.137	0.827
B6_jason_reseq	-0.123	0.15
MHCII_jason_reseq	-0.026	0.557
Isoniazid02	0.982	-0.096
Rifampicin4	-2.28	-0.219
Ethambutol3	0.0	-0.092
Meropenem3	-0.636	-0.151
Vancomycin16	-0.817	0.0
Rv2680_day32	0.131	-0.043
H37Rv_KO_MarP	1.659	0.391
hypoxia_3wks	0.0	-0.108
hypoxia_6wks	1.054	-0.931
glycerol	0.651	0.199
cholesterol	-1.453	0.877
AJ	0.931	1.103
Bibs02	0.335	0.246
Bibs02c	0.674	0.746
BL6	-0.725	-0.694
BL6a	0.994	0.474
BXD01	0.057	-0.088
BXD010	1.198	-0.299
BXD011	-0.088	-0.165
BXD03	0.392	0.296
BXD04	0.027	0.273
BXD05	-0.888	0.054
BXD06	0.058	-0.392
BXD07	-0.095	-0.066
BXD08	0.992	0.068
BXD09	0.334	0.004
CAST	-0.27	-0.339
CCcont	0.274	0.168
DS01	1.519	0.45
DS02	0.477	0.25
DS04	0.0	-0.271
DS0c	-0.049	0.231
GP01	-0.045	-0.487
GP02	-1.117	0.251
GP0c	-0.253	-0.201
NOD	-0.208	0.356
NZO	0.087	1.273
PWK	-0.99	-0.567
H37Rv_KO_CtpC	-0.706	-0.292
H37Rv_KO_CtpD	-1.199	-0.036
H37Rv_KO_Rv1272	-0.477	-0.34
H37Rv_KO_SugABC	0.064	0.324
H37Rv_KO_MbtN	-1.23	-0.824
Trans05	-0.976	-0.804
macrophage_unactivated	-0.496	0.114
IL1	-1.317	-0.362
Rapamycin	-2.133	-0.028
Tcell	-0.668	-0.196
GMCSF	-1.489	-0.533
IFNab	0.369	-0.565
IFNg	-2.143	-0.783
IFNg_GMCSF1	-1.395	0.085
Rv1432_day32	-0.035	0.0
Rv1565c_day32	-1.085	0.332
secA2_input	0.186	-0.535
delta_Rv3594	-1.265	0.236
delta_Rv3717	-1.36	-0.549
delta_Rv3811	-1.692	-0.361
delta_Rv0954	-1.129	0.336
PonA1	-0.41	0.04
EccD1_KO	0.174	0.059
EspI_KO	0.299	0.662
PE35_KO	0.922	0.309
PPE68_KO	1.081	0.538
glycerol2	2.089	0.996
lignocerate	0.065	0.654
oleate	0.149	0.936
phosphatidylcholine	0.111	0.766
acetate	-2.59	-0.238
glucAc	-1.61	0.267
Rv0950ko	0.874	0.814
Rv1096ko	2.542	0.374
Rv3684ko	0.147	0.262
delta_otsA_trehalose	0.065	0.278