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 Rv3691/-:

update plot	correlation	link to info on gene
Rv0730/-	(cc=0.5182)	info on Rv0730/-
Rv3395A/-	(cc=0.5121)	info on Rv3395A/-
Rv2550c/vapB20	(cc=0.5016)	info on Rv2550c/vapB20
Rv2142c/parE2	(cc=0.501)	info on Rv2142c/parE2
Rv0103c/ctpB	(cc=0.5004)	info on Rv0103c/ctpB
Rv3395c/-	(cc=0.4988)	info on Rv3395c/-
Rv3312A/-	(cc=0.4858)	info on Rv3312A/-
Rv1907c/-	(cc=0.4826)	info on Rv1907c/-
Rv2351c/plcA	(cc=0.4815)	info on Rv2351c/plcA
Rv1680/-	(cc=0.4806)	info on Rv1680/-

Correlation of Rv3691/- with Rv0730/-

Normalized LFCs for Rv3691/-:
(description and provenance of datasets)

	Rv3691/-	Rv0730/-
Fe_supp_jason_reseq	-0.56	-1.907
low_pH_jason_reseq	-1.437	-1.524
NO_jason_reseq	-0.302	0.486
B6_jason_reseq	-0.063	0.154
MHCII_jason_reseq	-0.313	0.387
Isoniazid02	-0.146	-0.454
Rifampicin4	0.49	-0.509
Ethambutol3	1.235	-0.21
Meropenem3	1.636	-0.028
Vancomycin16	0.663	-0.485
Rv2680_day32	-0.458	0.193
H37Rv_KO_MarP	-0.751	-0.058
hypoxia_3wks	0.247	-0.163
hypoxia_6wks	0.098	0.332
glycerol	-1.221	-1.109
cholesterol	0.295	-0.323
AJ	0.563	0.571
Bibs02	-0.462	-0.698
Bibs02c	0.409	-0.153
BL6	-1.048	0.026
BL6a	0.131	-0.466
BXD01	0.404	-0.994
BXD010	-0.819	-0.36
BXD011	-0.438	-2.174
BXD03	-0.376	-2.008
BXD04	-0.392	-1.194
BXD05	-0.911	-0.899
BXD06	-0.108	-0.772
BXD07	-0.173	-1.295
BXD08	0.931	-0.838
BXD09	-0.1	-0.793
CAST	1.043	0.133
CCcont	-0.378	-0.887
DS01	0.481	0.154
DS02	0.477	-0.21
DS04	0.891	0.121
DS0c	0.388	0.247
GP01	0.065	-1.636
GP02	-0.221	0.102
GP0c	0.521	-0.993
NOD	0.384	0.101
NZO	-0.205	0.143
PWK	1.89	1.253
H37Rv_KO_CtpC	-0.332	-0.737
H37Rv_KO_CtpD	0.083	0.512
H37Rv_KO_Rv1272	-0.878	-2.254
H37Rv_KO_SugABC	0.336	0.311
H37Rv_KO_MbtN	-0.287	-0.952
Trans05	0.396	-1.652
macrophage_unactivated	-0.363	-0.17
IL1	-1.373	-0.682
Rapamycin	-0.098	-0.786
Tcell	0.052	-0.893
GMCSF	-0.127	0.502
IFNab	0.048	-0.943
IFNg	-0.128	-0.874
IFNg_GMCSF1	-0.258	-1.027
Rv1432_day32	0.905	-0.081
Rv1565c_day32	-1.579	-0.693
secA2_input	0.366	-0.399
delta_Rv3594	0.226	-1.011
delta_Rv3717	0.769	-0.214
delta_Rv3811	0.193	-1.013
delta_Rv0954	0.446	0.103
PonA1	1.108	0.158
EccD1_KO	-0.947	-0.306
EspI_KO	-0.821	0.499
PE35_KO	-1.047	-0.741
PPE68_KO	-1.104	-0.902
glycerol2	1.297	0.675
lignocerate	1.033	0.833
oleate	1.935	0.625
phosphatidylcholine	0.95	0.846
acetate	1.476	1.109
glucAc	0.701	0.402
Rv0950ko	0.0	0.265
Rv1096ko	0.878	0.253
Rv3684ko	0.76	0.989
delta_otsA_trehalose	0.876	0.626