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 Rv1964/yrbE3A:

update plot	correlation	link to info on gene
Rv0315/-	(cc=0.5116)	info on Rv0315/-
Rv0154c/fadE2	(cc=0.4934)	info on Rv0154c/fadE2
Rv2045c/lipT	(cc=0.4847)	info on Rv2045c/lipT
Rv2758c/vapB21	(cc=0.4781)	info on Rv2758c/vapB21
Rv3314c/deoA	(cc=0.4712)	info on Rv3314c/deoA
Rv2038c/-	(cc=0.4681)	info on Rv2038c/-
Rv1830/-	(cc=0.4675)	info on Rv1830/-
Rv3229c/desA3	(cc=0.4621)	info on Rv3229c/desA3
Rv1772/-	(cc=0.4517)	info on Rv1772/-
Rv3747/-	(cc=0.4399)	info on Rv3747/-

Correlation of Rv1964/yrbE3A with Rv0315/-

Normalized LFCs for Rv1964/yrbE3A:
(description and provenance of datasets)

	Rv1964/yrbE3A	Rv0315/-
Fe_supp_jason_reseq	-0.073	0.336
low_pH_jason_reseq	-0.617	-0.515
NO_jason_reseq	-0.462	-1.714
B6_jason_reseq	-2.076	-0.939
MHCII_jason_reseq	-0.791	0.192
Isoniazid02	0.354	0.578
Rifampicin4	0.761	1.884
Ethambutol3	0.846	-0.073
Meropenem3	0.583	0.591
Vancomycin16	0.615	1.284
Rv2680_day32	-1.004	-0.976
H37Rv_KO_MarP	-0.26	-0.08
hypoxia_3wks	0.283	0.801
hypoxia_6wks	-0.044	0.864
glycerol	-1.295	-0.221
cholesterol	-0.733	0.158
AJ	0.254	0.066
Bibs02	-0.596	-1.058
Bibs02c	0.045	-0.828
BL6	0.527	0.793
BL6a	-0.221	-0.517
BXD01	-0.106	0.395
BXD010	-0.215	0.759
BXD011	0.438	0.242
BXD03	0.712	0.375
BXD04	0.135	0.135
BXD05	-0.197	0.222
BXD06	0.097	0.188
BXD07	0.104	0.39
BXD08	0.667	0.912
BXD09	-0.095	0.293
CAST	-0.966	-1.029
CCcont	0.193	0.965
DS01	-0.662	-0.994
DS02	-0.422	-0.397
DS04	-0.436	-0.884
DS0c	-0.154	-0.566
GP01	1.515	0.321
GP02	-1.02	-1.084
GP0c	-0.057	-0.536
NOD	0.758	0.013
NZO	-0.692	0.0
PWK	-0.672	-0.128
H37Rv_KO_CtpC	0.933	-0.524
H37Rv_KO_CtpD	1.268	-0.075
H37Rv_KO_Rv1272	0.787	1.556
H37Rv_KO_SugABC	-1.387	-1.464
H37Rv_KO_MbtN	1.105	-0.661
Trans05	0.554	-0.07
macrophage_unactivated	0.297	0.202
IL1	-0.383	0.291
Rapamycin	-0.04	-0.298
Tcell	0.163	-0.169
GMCSF	0.28	0.958
IFNab	0.475	0.339
IFNg	1.36	-0.099
IFNg_GMCSF1	0.383	0.515
Rv1432_day32	0.039	-0.66
Rv1565c_day32	-0.272	-0.881
secA2_input	0.24	0.338
delta_Rv3594	0.405	0.185
delta_Rv3717	0.258	0.682
delta_Rv3811	0.721	0.461
delta_Rv0954	0.669	0.73
PonA1	0.084	0.35
EccD1_KO	-0.664	-1.473
EspI_KO	-0.662	-1.246
PE35_KO	-0.379	-0.706
PPE68_KO	-0.31	-1.027
glycerol2	0.153	-0.146
lignocerate	0.509	-1.257
oleate	-0.634	-0.023
phosphatidylcholine	0.136	-0.161
acetate	1.124	0.07
glucAc	0.876	0.17
Rv0950ko	0.151	0.482
Rv1096ko	0.48	0.277
Rv3684ko	0.888	-0.157
delta_otsA_trehalose	0.359	0.264