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 Rv3483c/-:

update plot	correlation	link to info on gene
Rv3705c/-	(cc=0.5625)	info on Rv3705c/-
Rv3197/-	(cc=0.5439)	info on Rv3197/-
Rv0418/lpqL	(cc=0.4988)	info on Rv0418/lpqL
Rv3561/fadD3	(cc=0.4912)	info on Rv3561/fadD3
Rv1193/fadD36	(cc=0.4865)	info on Rv1193/fadD36
Rv0409/ackA	(cc=0.4762)	info on Rv0409/ackA
Rv1791/PE19	(cc=0.4739)	info on Rv1791/PE19
Rv2053c/fxsA	(cc=0.4685)	info on Rv2053c/fxsA
Rv3000/-	(cc=0.4636)	info on Rv3000/-
Rv0317c/glpQ2	(cc=0.4625)	info on Rv0317c/glpQ2

Correlation of Rv3483c/- with Rv2053c/fxsA

Normalized LFCs for Rv3483c/-:
(description and provenance of datasets)

	Rv3483c/-	Rv2053c/fxsA
Fe_supp_jason_reseq	1.085	0.636
low_pH_jason_reseq	-0.341	-0.761
NO_jason_reseq	-0.488	1.095
B6_jason_reseq	-0.514	-0.168
MHCII_jason_reseq	-0.697	0.31
Isoniazid02	1.433	0.554
Rifampicin4	-0.187	0.793
Ethambutol3	1.747	0.089
Meropenem3	3.141	1.223
Vancomycin16	0.252	0.289
Rv2680_day32	-0.025	0.111
H37Rv_KO_MarP	-0.048	-0.246
hypoxia_3wks	0.044	0.327
hypoxia_6wks	-0.157	0.063
glycerol	0.317	0.17
cholesterol	0.289	0.292
AJ	-0.373	-0.578
Bibs02	0.371	0.013
Bibs02c	-0.42	0.365
BL6	0.031	-0.654
BL6a	-0.339	0.103
BXD01	-0.428	0.312
BXD010	0.56	-0.658
BXD011	0.026	-0.39
BXD03	0.154	0.326
BXD04	0.056	-0.043
BXD05	0.178	0.374
BXD06	-0.516	0.249
BXD07	-0.171	0.375
BXD08	-0.974	0.225
BXD09	-0.253	-0.008
CAST	-0.891	0.701
CCcont	-0.051	-0.758
DS01	0.628	0.801
DS02	0.419	0.983
DS04	-0.342	0.996
DS0c	0.173	1.365
GP01	0.512	0.825
GP02	0.699	0.541
GP0c	0.312	1.023
NOD	0.055	-0.729
NZO	-0.896	-1.192
PWK	-0.807	-0.195
H37Rv_KO_CtpC	0.273	0.812
H37Rv_KO_CtpD	1.786	1.457
H37Rv_KO_Rv1272	-0.363	-0.212
H37Rv_KO_SugABC	-0.204	0.803
H37Rv_KO_MbtN	-0.713	0.367
Trans05	0.468	-0.063
macrophage_unactivated	0.884	-0.199
IL1	1.332	0.792
Rapamycin	1.415	0.42
Tcell	0.303	0.446
GMCSF	0.692	0.393
IFNab	0.472	0.989
IFNg	0.235	0.599
IFNg_GMCSF1	0.581	0.974
Rv1432_day32	-0.494	-0.778
Rv1565c_day32	0.586	-0.101
secA2_input	0.529	1.312
delta_Rv3594	-0.246	0.283
delta_Rv3717	-0.385	-0.254
delta_Rv3811	-0.694	-0.529
delta_Rv0954	0.663	1.083
PonA1	0.469	0.171
EccD1_KO	-0.602	0.283
EspI_KO	-0.337	0.59
PE35_KO	-1.21	-0.86
PPE68_KO	-0.95	-0.576
glycerol2	-0.198	0.3
lignocerate	0.163	0.133
oleate	0.6	0.767
phosphatidylcholine	0.367	0.658
acetate	-0.442	-1.175
glucAc	-0.425	-0.888
Rv0950ko	1.285	1.143
Rv1096ko	1.01	0.054
Rv3684ko	-0.246	-0.138
delta_otsA_trehalose	1.284	0.294