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 Rv1830/-

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

	Rv1964/yrbE3A	Rv1830/-
Fe_supp_jason_reseq	-0.073	-1.285
low_pH_jason_reseq	-0.617	-2.453
NO_jason_reseq	-0.462	-0.562
B6_jason_reseq	-2.076	-2.814
MHCII_jason_reseq	-0.791	-2.478
Isoniazid02	0.354	-0.221
Rifampicin4	0.761	1.172
Ethambutol3	0.846	2.094
Meropenem3	0.583	0.519
Vancomycin16	0.615	0.0
Rv2680_day32	-1.004	0.0
H37Rv_KO_MarP	-0.26	-1.527
hypoxia_3wks	0.283	0.0
hypoxia_6wks	-0.044	0.0
glycerol	-1.295	0.554
cholesterol	-0.733	0.0
AJ	0.254	0.0
Bibs02	-0.596	0.0
Bibs02c	0.045	0.0
BL6	0.527	0.0
BL6a	-0.221	0.198
BXD01	-0.106	0.0
BXD010	-0.215	0.0
BXD011	0.438	0.243
BXD03	0.712	0.0
BXD04	0.135	0.0
BXD05	-0.197	0.135
BXD06	0.097	0.0
BXD07	0.104	0.0
BXD08	0.667	0.0
BXD09	-0.095	0.0
CAST	-0.966	0.0
CCcont	0.193	0.525
DS01	-0.662	0.0
DS02	-0.422	0.0
DS04	-0.436	0.0
DS0c	-0.154	0.0
GP01	1.515	0.662
GP02	-1.02	0.159
GP0c	-0.057	1.663
NOD	0.758	0.0
NZO	-0.692	0.0
PWK	-0.672	0.196
H37Rv_KO_CtpC	0.933	0.901
H37Rv_KO_CtpD	1.268	0.127
H37Rv_KO_Rv1272	0.787	2.25
H37Rv_KO_SugABC	-1.387	0.0
H37Rv_KO_MbtN	1.105	0.897
Trans05	0.554	2.024
macrophage_unactivated	0.297	0.436
IL1	-0.383	0.0
Rapamycin	-0.04	0.0
Tcell	0.163	0.0
GMCSF	0.28	0.0
IFNab	0.475	0.0
IFNg	1.36	0.0
IFNg_GMCSF1	0.383	0.0
Rv1432_day32	0.039	0.0
Rv1565c_day32	-0.272	0.0
secA2_input	0.24	0.167
delta_Rv3594	0.405	0.369
delta_Rv3717	0.258	1.055
delta_Rv3811	0.721	1.732
delta_Rv0954	0.669	-1.349
PonA1	0.084	-0.675
EccD1_KO	-0.664	0.0
EspI_KO	-0.662	-1.56
PE35_KO	-0.379	-0.995
PPE68_KO	-0.31	-1.411
glycerol2	0.153	0.369
lignocerate	0.509	0.168
oleate	-0.634	0.0
phosphatidylcholine	0.136	0.193
acetate	1.124	0.229
glucAc	0.876	0.605
Rv0950ko	0.151	-0.172
Rv1096ko	0.48	1.294
Rv3684ko	0.888	-0.187
delta_otsA_trehalose	0.359	-0.965