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 Rv2528c/mrr:

update plot	correlation	link to info on gene
Rv2796c/lppV	(cc=0.4615)	info on Rv2796c/lppV
Rv0905/echA6	(cc=0.4331)	info on Rv0905/echA6
Rv1560/vapB11	(cc=0.3596)	info on Rv1560/vapB11
Rv2495c/bkdC	(cc=0.3578)	info on Rv2495c/bkdC
Rv0493c/-	(cc=0.3575)	info on Rv0493c/-
Rv1365c/rsfA	(cc=0.3523)	info on Rv1365c/rsfA
Rv3039c/echA17	(cc=0.34)	info on Rv3039c/echA17
Rv2634c/PE_PGRS46	(cc=0.3394)	info on Rv2634c/PE_PGRS46
Rv3070/-	(cc=0.3385)	info on Rv3070/-
Rv2403c/lppR	(cc=0.338)	info on Rv2403c/lppR

Correlation of Rv2528c/mrr with Rv2796c/lppV

Normalized LFCs for Rv2528c/mrr:
(description and provenance of datasets)

	Rv2528c/mrr	Rv2796c/lppV
Fe_supp_jason_reseq	-1.956	-0.028
low_pH_jason_reseq	-0.668	-0.448
NO_jason_reseq	0.423	0.669
B6_jason_reseq	-0.381	0.761
MHCII_jason_reseq	-0.139	-0.046
Isoniazid02	-0.308	-0.247
Rifampicin4	-0.598	-0.512
Ethambutol3	-0.269	0.119
Meropenem3	-0.736	-0.01
Vancomycin16	-0.562	0.111
Rv2680_day32	-0.348	0.582
H37Rv_KO_MarP	0.111	0.869
hypoxia_3wks	0.044	-0.136
hypoxia_6wks	0.044	0.357
glycerol	-1.438	-0.124
cholesterol	-0.328	-0.275
AJ	-0.437	0.543
Bibs02	0.012	0.505
Bibs02c	0.632	0.781
BL6	0.914	0.33
BL6a	0.717	0.547
BXD01	-0.787	0.213
BXD010	-0.147	0.431
BXD011	0.997	-0.091
BXD03	-0.155	0.357
BXD04	0.314	0.499
BXD05	0.685	0.066
BXD06	0.435	0.186
BXD07	0.405	0.117
BXD08	0.446	-0.127
BXD09	0.438	0.057
CAST	-0.834	0.269
CCcont	-0.108	0.055
DS01	0.489	0.876
DS02	0.616	0.868
DS04	1.349	0.877
DS0c	0.273	1.067
GP01	0.77	0.185
GP02	-0.805	-1.339
GP0c	-0.728	-0.004
NOD	-0.563	0.158
NZO	0.776	-0.013
PWK	-0.115	0.294
H37Rv_KO_CtpC	-0.892	-0.574
H37Rv_KO_CtpD	-1.654	-2.056
H37Rv_KO_Rv1272	-0.805	-0.736
H37Rv_KO_SugABC	-1.66	-1.26
H37Rv_KO_MbtN	-0.964	-0.904
Trans05	-0.774	0.235
macrophage_unactivated	-0.312	-0.24
IL1	-0.071	0.05
Rapamycin	-0.018	-0.792
Tcell	-0.691	-0.072
GMCSF	-0.243	1.077
IFNab	0.296	-0.973
IFNg	-0.179	-0.537
IFNg_GMCSF1	1.8	3.337
Rv1432_day32	-0.091	0.669
Rv1565c_day32	-0.408	-0.303
secA2_input	-0.612	0.632
delta_Rv3594	0.018	0.794
delta_Rv3717	0.503	-0.581
delta_Rv3811	-0.089	0.409
delta_Rv0954	-0.143	0.081
PonA1	-0.661	1.489
EccD1_KO	-0.197	0.181
EspI_KO	-1.035	0.992
PE35_KO	0.125	0.68
PPE68_KO	0.227	-0.352
glycerol2	-1.665	0.413
lignocerate	-0.134	0.918
oleate	-0.78	-0.06
phosphatidylcholine	-0.291	0.34
acetate	0.973	0.716
glucAc	0.676	0.846
Rv0950ko	-0.121	0.332
Rv1096ko	0.826	0.199
Rv3684ko	0.17	0.56
delta_otsA_trehalose	-0.386	-1.466