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 Rv2045c/lipT

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

	Rv1964/yrbE3A	Rv2045c/lipT
Fe_supp_jason_reseq	-0.073	0.745
low_pH_jason_reseq	-0.617	-0.862
NO_jason_reseq	-0.462	-0.194
B6_jason_reseq	-2.076	-0.785
MHCII_jason_reseq	-0.791	0.102
Isoniazid02	0.354	0.792
Rifampicin4	0.761	0.82
Ethambutol3	0.846	0.961
Meropenem3	0.583	0.629
Vancomycin16	0.615	0.406
Rv2680_day32	-1.004	0.43
H37Rv_KO_MarP	-0.26	0.171
hypoxia_3wks	0.283	0.893
hypoxia_6wks	-0.044	0.894
glycerol	-1.295	0.222
cholesterol	-0.733	-0.251
AJ	0.254	-0.286
Bibs02	-0.596	1.114
Bibs02c	0.045	0.03
BL6	0.527	1.115
BL6a	-0.221	0.659
BXD01	-0.106	1.128
BXD010	-0.215	0.739
BXD011	0.438	0.464
BXD03	0.712	0.856
BXD04	0.135	0.744
BXD05	-0.197	0.975
BXD06	0.097	1.061
BXD07	0.104	1.118
BXD08	0.667	1.074
BXD09	-0.095	0.81
CAST	-0.966	0.314
CCcont	0.193	1.093
DS01	-0.662	-0.178
DS02	-0.422	-0.739
DS04	-0.436	0.765
DS0c	-0.154	-0.966
GP01	1.515	1.129
GP02	-1.02	1.238
GP0c	-0.057	0.526
NOD	0.758	1.058
NZO	-0.692	0.321
PWK	-0.672	0.242
H37Rv_KO_CtpC	0.933	0.95
H37Rv_KO_CtpD	1.268	1.057
H37Rv_KO_Rv1272	0.787	0.677
H37Rv_KO_SugABC	-1.387	0.429
H37Rv_KO_MbtN	1.105	0.874
Trans05	0.554	1.011
macrophage_unactivated	0.297	0.328
IL1	-0.383	0.685
Rapamycin	-0.04	0.583
Tcell	0.163	0.978
GMCSF	0.28	-0.504
IFNab	0.475	0.175
IFNg	1.36	0.778
IFNg_GMCSF1	0.383	0.361
Rv1432_day32	0.039	-0.286
Rv1565c_day32	-0.272	0.049
secA2_input	0.24	0.0
delta_Rv3594	0.405	1.721
delta_Rv3717	0.258	1.151
delta_Rv3811	0.721	1.872
delta_Rv0954	0.669	0.459
PonA1	0.084	0.684
EccD1_KO	-0.664	-0.421
EspI_KO	-0.662	0.399
PE35_KO	-0.379	-0.073
PPE68_KO	-0.31	0.0
glycerol2	0.153	0.604
lignocerate	0.509	0.833
oleate	-0.634	0.0
phosphatidylcholine	0.136	0.749
acetate	1.124	1.553
glucAc	0.876	0.686
Rv0950ko	0.151	-0.335
Rv1096ko	0.48	0.235
Rv3684ko	0.888	0.419
delta_otsA_trehalose	0.359	0.98