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 Rv2804c/-

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

	Rv3665c/dppB	Rv2804c/-
Fe_supp_jason_reseq	-0.365	-0.661
low_pH_jason_reseq	2.515	0.211
NO_jason_reseq	-1.982	-0.087
B6_jason_reseq	-2.162	-0.134
MHCII_jason_reseq	-1.4	0.891
Isoniazid02	-0.506	0.422
Rifampicin4	0.165	1.27
Ethambutol3	1.667	0.158
Meropenem3	-0.689	0.247
Vancomycin16	-0.111	0.345
Rv2680_day32	0.573	0.806
H37Rv_KO_MarP	-0.272	0.435
hypoxia_3wks	0.327	0.064
hypoxia_6wks	-0.478	-0.113
glycerol	0.654	0.521
cholesterol	0.854	0.516
AJ	0.751	0.916
Bibs02	1.142	0.903
Bibs02c	0.474	0.196
BL6	0.906	0.421
BL6a	0.062	0.309
BXD01	0.0	-0.454
BXD010	0.8	0.11
BXD011	0.078	0.404
BXD03	-0.135	-0.486
BXD04	-0.524	0.12
BXD05	-0.636	0.016
BXD06	0.233	-0.374
BXD07	0.279	0.048
BXD08	-0.442	0.553
BXD09	0.488	-0.126
CAST	1.185	0.958
CCcont	0.585	-0.504
DS01	0.975	0.423
DS02	0.321	0.561
DS04	1.744	1.235
DS0c	1.199	1.119
GP01	0.699	-0.366
GP02	-0.175	1.241
GP0c	0.834	0.064
NOD	0.205	0.566
NZO	-0.663	0.207
PWK	0.0	0.732
H37Rv_KO_CtpC	1.949	1.116
H37Rv_KO_CtpD	-0.316	0.039
H37Rv_KO_Rv1272	-1.067	-1.693
H37Rv_KO_SugABC	1.302	0.353
H37Rv_KO_MbtN	-0.715	-0.847
Trans05	-1.5	-0.386
macrophage_unactivated	-0.593	-0.208
IL1	-0.439	-0.658
Rapamycin	-1.099	-0.7
Tcell	0.332	-0.622
GMCSF	-0.391	-0.38
IFNab	0.502	-0.405
IFNg	-0.502	-0.77
IFNg_GMCSF1	-1.266	0.016
Rv1432_day32	0.0	-0.631
Rv1565c_day32	0.646	-0.52
secA2_input	-0.167	0.307
delta_Rv3594	-1.071	-0.216
delta_Rv3717	-1.33	0.301
delta_Rv3811	-0.674	-0.082
delta_Rv0954	-0.111	0.886
PonA1	-0.316	0.293
EccD1_KO	-1.168	0.237
EspI_KO	0.493	0.784
PE35_KO	-0.236	0.254
PPE68_KO	-0.928	-0.134
glycerol2	0.261	0.496
lignocerate	0.06	0.566
oleate	-0.345	0.254
phosphatidylcholine	0.492	0.515
acetate	-0.216	0.414
glucAc	-0.554	-0.205
Rv0950ko	-0.178	-0.552
Rv1096ko	0.172	-0.688
Rv3684ko	-0.498	0.151
delta_otsA_trehalose	-2.907	-0.576