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 Rv3665c/dppB:

update plot	correlation	link to info on gene
Rv3776/-	(cc=0.4675)	info on Rv3776/-
Rv1944c/-	(cc=0.4409)	info on Rv1944c/-
Rv3813c/-	(cc=0.4353)	info on Rv3813c/-
Rv2665/-	(cc=0.4068)	info on Rv2665/-
Rv2804c/-	(cc=0.4004)	info on Rv2804c/-
Rv1845c/blaR	(cc=0.397)	info on Rv1845c/blaR
Rv3481c/-	(cc=0.3932)	info on Rv3481c/-
Rv1100/-	(cc=0.3866)	info on Rv1100/-
Rv2206/-	(cc=0.382)	info on Rv2206/-
Rv1020/mfd	(cc=0.3785)	info on Rv1020/mfd

Correlation of Rv3665c/dppB with Rv3776/-

Normalized LFCs for Rv3665c/dppB:
(description and provenance of datasets)

	Rv3665c/dppB	Rv3776/-
Fe_supp_jason_reseq	-0.365	-0.406
low_pH_jason_reseq	2.515	1.193
NO_jason_reseq	-1.982	0.034
B6_jason_reseq	-2.162	-0.219
MHCII_jason_reseq	-1.4	-0.207
Isoniazid02	-0.506	0.655
Rifampicin4	0.165	-0.255
Ethambutol3	1.667	1.284
Meropenem3	-0.689	-0.35
Vancomycin16	-0.111	-0.186
Rv2680_day32	0.573	0.307
H37Rv_KO_MarP	-0.272	0.316
hypoxia_3wks	0.327	-0.271
hypoxia_6wks	-0.478	-0.468
glycerol	0.654	0.12
cholesterol	0.854	-0.169
AJ	0.751	0.282
Bibs02	1.142	0.642
Bibs02c	0.474	0.67
BL6	0.906	0.355
BL6a	0.062	0.263
BXD01	0.0	0.235
BXD010	0.8	-0.444
BXD011	0.078	-0.327
BXD03	-0.135	-0.009
BXD04	-0.524	0.503
BXD05	-0.636	-0.042
BXD06	0.233	-0.213
BXD07	0.279	-0.182
BXD08	-0.442	0.198
BXD09	0.488	-0.339
CAST	1.185	0.404
CCcont	0.585	0.173
DS01	0.975	0.438
DS02	0.321	0.912
DS04	1.744	0.485
DS0c	1.199	0.625
GP01	0.699	0.849
GP02	-0.175	1.226
GP0c	0.834	0.624
NOD	0.205	0.867
NZO	-0.663	0.221
PWK	0.0	0.139
H37Rv_KO_CtpC	1.949	0.351
H37Rv_KO_CtpD	-0.316	0.406
H37Rv_KO_Rv1272	-1.067	-0.244
H37Rv_KO_SugABC	1.302	0.436
H37Rv_KO_MbtN	-0.715	1.29
Trans05	-1.5	0.187
macrophage_unactivated	-0.593	-0.139
IL1	-0.439	0.273
Rapamycin	-1.099	0.331
Tcell	0.332	0.14
GMCSF	-0.391	0.024
IFNab	0.502	0.051
IFNg	-0.502	-0.069
IFNg_GMCSF1	-1.266	0.239
Rv1432_day32	0.0	0.716
Rv1565c_day32	0.646	0.46
secA2_input	-0.167	0.668
delta_Rv3594	-1.071	-0.541
delta_Rv3717	-1.33	-0.22
delta_Rv3811	-0.674	-0.541
delta_Rv0954	-0.111	-0.052
PonA1	-0.316	-0.172
EccD1_KO	-1.168	-0.247
EspI_KO	0.493	-0.764
PE35_KO	-0.236	-0.26
PPE68_KO	-0.928	-0.397
glycerol2	0.261	0.182
lignocerate	0.06	0.274
oleate	-0.345	0.133
phosphatidylcholine	0.492	0.22
acetate	-0.216	0.126
glucAc	-0.554	0.059
Rv0950ko	-0.178	0.419
Rv1096ko	0.172	0.127
Rv3684ko	-0.498	0.219
delta_otsA_trehalose	-2.907	-1.085