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 Rv3731/ligC:

update plot	correlation	link to info on gene
Rv3538/-	(cc=0.5859)	info on Rv3538/-
Rv3506/fadD17	(cc=0.5413)	info on Rv3506/fadD17
Rv0560c/-	(cc=0.536)	info on Rv0560c/-
Rv3903c/-	(cc=0.5198)	info on Rv3903c/-
Rv2826c/-	(cc=0.5121)	info on Rv2826c/-
Rv0089/-	(cc=0.5036)	info on Rv0089/-
Rv1070c/echA8	(cc=0.4987)	info on Rv1070c/echA8
Rv0758/phoR	(cc=0.4883)	info on Rv0758/phoR
Rv2625c/-	(cc=0.4853)	info on Rv2625c/-
Rv0984/moaB2	(cc=0.4823)	info on Rv0984/moaB2

Correlation of Rv3731/ligC with Rv3903c/-

Normalized LFCs for Rv3731/ligC:
(description and provenance of datasets)

	Rv3731/ligC	Rv3903c/-
Fe_supp_jason_reseq	-0.142	-0.194
low_pH_jason_reseq	0.313	0.244
NO_jason_reseq	-0.903	-0.428
B6_jason_reseq	-0.138	-0.109
MHCII_jason_reseq	0.414	-0.429
Isoniazid02	-0.073	-0.413
Rifampicin4	-0.328	-0.403
Ethambutol3	1.025	0.164
Meropenem3	0.27	-0.34
Vancomycin16	0.016	-0.284
Rv2680_day32	0.331	-0.049
H37Rv_KO_MarP	0.103	0.58
hypoxia_3wks	0.024	-0.243
hypoxia_6wks	-0.223	-0.459
glycerol	-0.418	0.086
cholesterol	-0.621	-0.406
AJ	-0.338	0.376
Bibs02	0.019	-0.491
Bibs02c	0.464	0.276
BL6	0.034	-0.281
BL6a	0.26	0.0
BXD01	-0.614	0.011
BXD010	-0.57	0.237
BXD011	0.201	-0.045
BXD03	0.082	0.219
BXD04	0.03	0.134
BXD05	-0.449	0.012
BXD06	-0.184	-0.329
BXD07	-0.468	-0.357
BXD08	-0.076	0.035
BXD09	-0.378	0.072
CAST	-0.487	-0.04
CCcont	-0.463	-0.471
DS01	0.228	0.18
DS02	0.14	-0.098
DS04	0.034	0.017
DS0c	0.438	0.182
GP01	0.108	-0.707
GP02	0.826	0.36
GP0c	0.209	-0.645
NOD	-0.381	0.133
NZO	-0.405	-0.241
PWK	-0.027	0.391
H37Rv_KO_CtpC	0.141	0.188
H37Rv_KO_CtpD	-0.816	0.425
H37Rv_KO_Rv1272	0.297	0.38
H37Rv_KO_SugABC	-0.479	0.26
H37Rv_KO_MbtN	0.921	1.459
Trans05	-0.449	0.495
macrophage_unactivated	-1.206	-0.249
IL1	-0.427	-0.925
Rapamycin	-0.239	-0.04
Tcell	-0.89	-0.085
GMCSF	-0.053	-0.137
IFNab	-0.662	-0.71
IFNg	-0.863	-0.47
IFNg_GMCSF1	-0.616	-0.041
Rv1432_day32	0.31	-0.302
Rv1565c_day32	0.13	-0.509
secA2_input	0.142	-0.589
delta_Rv3594	0.038	-0.217
delta_Rv3717	0.039	0.0
delta_Rv3811	0.44	0.297
delta_Rv0954	0.309	0.181
PonA1	0.14	-0.33
EccD1_KO	0.033	0.243
EspI_KO	0.322	-0.137
PE35_KO	-0.166	0.19
PPE68_KO	-0.41	-0.093
glycerol2	0.664	0.422
lignocerate	0.412	0.233
oleate	0.491	0.526
phosphatidylcholine	0.602	0.139
acetate	0.951	0.231
glucAc	0.247	-0.176
Rv0950ko	0.929	0.283
Rv1096ko	0.663	0.066
Rv3684ko	0.914	0.783
delta_otsA_trehalose	1.783	2.02