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 Rv2998/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1508A/-	(cc=0.5325)	info on Rv1508A/-
Rv2492/-	(cc=0.5168)	info on Rv2492/-
Rv0691c/-	(cc=0.5138)	info on Rv0691c/-
Rv3138/pflA	(cc=0.5123)	info on Rv3138/pflA
Rv0567/-	(cc=0.4873)	info on Rv0567/-
Rv2310/-	(cc=0.4857)	info on Rv2310/-
Rv1269c/-	(cc=0.4854)	info on Rv1269c/-
Rv2880c/-	(cc=0.4774)	info on Rv2880c/-
Rv0934/pstS1	(cc=0.4497)	info on Rv0934/pstS1
Rv0557/mgtA	(cc=0.4462)	info on Rv0557/mgtA

Correlation of Rv2998/- with Rv1508A/-

Normalized LFCs for Rv2998/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2998/-	Rv1508A/-
Fe_supp_jason_reseq	0.0	0.608
low_pH_jason_reseq	-1.074	0.279
NO_jason_reseq	0.378	0.116
B6_jason_reseq	-0.74	-0.172
MHCII_jason_reseq	0.621	-0.921
Isoniazid02	-0.723	-0.662
Rifampicin4	0.647	-0.36
Ethambutol3	-0.373	1.415
Meropenem3	-1.329	-0.252
Vancomycin16	-0.568	-0.48
Rv2680_day32	-2.766	-0.352
H37Rv_KO_MarP	0.401	0.509
hypoxia_3wks	0.044	-0.921
hypoxia_6wks	0.67	0.489
glycerol	-0.357	-0.974
cholesterol	-0.07	-0.19
AJ	-0.015	0.36
Bibs02	-0.558	-1.407
Bibs02c	0.571	0.243
BL6	0.368	0.497
BL6a	0.927	-0.07
BXD01	0.66	0.131
BXD010	-0.018	0.31
BXD011	0.008	-0.3
BXD03	0.289	0.418
BXD04	0.389	0.011
BXD05	1.214	-0.331
BXD06	0.642	0.046
BXD07	0.769	-0.223
BXD08	0.684	-0.122
BXD09	0.576	0.185
CAST	0.137	0.475
CCcont	-0.389	-0.21
DS01	-0.536	0.0
DS02	-0.438	-0.584
DS04	-0.208	-0.178
DS0c	1.571	-0.097
GP01	1.334	0.68
GP02	-0.538	0.084
GP0c	-0.23	0.182
NOD	-0.174	-0.02
NZO	-0.663	-0.751
PWK	0.993	-0.217
H37Rv_KO_CtpC	0.613	0.201
H37Rv_KO_CtpD	1.171	1.846
H37Rv_KO_Rv1272	0.714	1.664
H37Rv_KO_SugABC	-1.841	-1.846
H37Rv_KO_MbtN	-1.256	-0.266
Trans05	0.127	0.788
macrophage_unactivated	0.877	0.385
IL1	0.068	-0.742
Rapamycin	0.071	0.117
Tcell	0.345	0.283
GMCSF	1.085	-0.069
IFNab	0.121	-0.363
IFNg	0.535	-0.548
IFNg_GMCSF1	0.214	-0.204
Rv1432_day32	1.7	0.811
Rv1565c_day32	-0.381	-0.55
secA2_input	-0.304	-0.612
delta_Rv3594	-2.168	-1.848
delta_Rv3717	-1.986	-1.063
delta_Rv3811	-1.698	-0.842
delta_Rv0954	-1.265	-1.008
PonA1	-2.401	-0.374
EccD1_KO	1.214	0.118
EspI_KO	0.633	-0.519
PE35_KO	1.896	1.038
PPE68_KO	1.609	1.107
glycerol2	0.371	-0.113
lignocerate	-0.186	0.138
oleate	0.74	-0.155
phosphatidylcholine	0.577	0.322
acetate	-0.977	0.086
glucAc	-1.121	0.166
Rv0950ko	0.757	-0.163
Rv1096ko	1.707	-1.019
Rv3684ko	-0.242	-0.684
delta_otsA_trehalose	-2.389	-2.369