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 Rv2943A/-:

update plot	correlation	link to info on gene
Rv2944/-	(cc=0.5501)	info on Rv2944/-
Rv1735c/-	(cc=0.5195)	info on Rv1735c/-
Rv0753c/mmsA	(cc=0.5165)	info on Rv0753c/mmsA
Rv0852/fadD16	(cc=0.4993)	info on Rv0852/fadD16
Rv2484c/-	(cc=0.4935)	info on Rv2484c/-
Rv0901/-	(cc=0.4888)	info on Rv0901/-
Rv2483c/plsC	(cc=0.4811)	info on Rv2483c/plsC
Rv0840c/pip	(cc=0.4805)	info on Rv0840c/pip
Rv1041c/-	(cc=0.4796)	info on Rv1041c/-
Rv1864c/-	(cc=0.4701)	info on Rv1864c/-

Correlation of Rv2943A/- with Rv2944/-

Normalized LFCs for Rv2943A/-:
(description and provenance of datasets)

	Rv2943A/-	Rv2944/-
Fe_supp_jason_reseq	-1.397	0.027
low_pH_jason_reseq	-0.763	-0.773
NO_jason_reseq	-0.69	-0.045
B6_jason_reseq	-0.779	-0.315
MHCII_jason_reseq	-0.465	0.26
Isoniazid02	0.556	0.434
Rifampicin4	-0.785	0.46
Ethambutol3	0.293	0.477
Meropenem3	-0.165	-0.036
Vancomycin16	0.0	0.589
Rv2680_day32	-3.118	0.668
H37Rv_KO_MarP	0.073	-0.196
hypoxia_3wks	-0.371	-0.183
hypoxia_6wks	0.24	-0.144
glycerol	-0.572	-1.267
cholesterol	-1.167	-0.279
AJ	-0.324	-0.867
Bibs02	-0.751	-0.159
Bibs02c	0.993	0.405
BL6	-0.723	-0.571
BL6a	0.891	0.0
BXD01	-1.335	-0.732
BXD010	-1.557	-1.608
BXD011	0.615	0.197
BXD03	-2.275	-2.313
BXD04	-1.503	-1.408
BXD05	-0.381	0.097
BXD06	-1.323	-1.381
BXD07	-0.8	-1.068
BXD08	-1.318	0.084
BXD09	-1.056	-0.979
CAST	0.088	-0.247
CCcont	-1.879	-0.598
DS01	1.519	0.7
DS02	1.172	1.133
DS04	2.334	1.054
DS0c	-0.578	-0.369
GP01	-1.799	-0.603
GP02	0.462	-0.925
GP0c	-1.693	-2.105
NOD	-1.513	-1.822
NZO	-0.6	-0.276
PWK	0.075	-0.313
H37Rv_KO_CtpC	-1.356	-1.99
H37Rv_KO_CtpD	-2.405	0.41
H37Rv_KO_Rv1272	1.726	0.735
H37Rv_KO_SugABC	-1.087	-0.076
H37Rv_KO_MbtN	-0.891	-1.428
Trans05	1.005	0.191
macrophage_unactivated	-1.96	-1.935
IL1	-1.427	-0.056
Rapamycin	-1.58	-0.295
Tcell	-1.567	-0.714
GMCSF	-1.74	0.372
IFNab	0.073	0.218
IFNg	-2.424	-1.638
IFNg_GMCSF1	-1.106	1.64
Rv1432_day32	0.412	0.98
Rv1565c_day32	1.063	0.662
secA2_input	-1.999	-0.034
delta_Rv3594	-1.676	-0.147
delta_Rv3717	-0.938	-0.39
delta_Rv3811	-1.166	-0.595
delta_Rv0954	0.652	0.872
PonA1	-0.426	-0.054
EccD1_KO	1.848	0.293
EspI_KO	0.633	-0.066
PE35_KO	1.902	1.593
PPE68_KO	1.411	1.104
glycerol2	-1.477	0.581
lignocerate	-0.617	0.872
oleate	0.074	0.274
phosphatidylcholine	-0.413	0.581
acetate	-0.283	1.155
glucAc	-0.98	0.628
Rv0950ko	1.737	-0.057
Rv1096ko	1.188	0.112
Rv3684ko	2.066	1.104
delta_otsA_trehalose	1.161	0.843