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 Rv1850/ureC:

update plot	correlation	link to info on gene
Rv2274c/mazF8	(cc=0.5529)	info on Rv2274c/mazF8
Rv1364c/-	(cc=0.4968)	info on Rv1364c/-
Rv1571/-	(cc=0.4867)	info on Rv1571/-
Rv1920/-	(cc=0.4828)	info on Rv1920/-
Rv2275/-	(cc=0.482)	info on Rv2275/-
Rv2818c/-	(cc=0.4719)	info on Rv2818c/-
Rv1504c/-	(cc=0.464)	info on Rv1504c/-
Rv1551/plsB1	(cc=0.4528)	info on Rv1551/plsB1
Rv0505c/serB1	(cc=0.4448)	info on Rv0505c/serB1
Rv2847c/cysG	(cc=0.4396)	info on Rv2847c/cysG

Correlation of Rv1850/ureC with Rv2275/-

Normalized LFCs for Rv1850/ureC:
(description and provenance of datasets)

	Rv1850/ureC	Rv2275/-
Fe_supp_jason_reseq	-0.583	0.827
low_pH_jason_reseq	-0.756	0.617
NO_jason_reseq	-0.386	-0.244
B6_jason_reseq	-0.675	-0.7
MHCII_jason_reseq	-0.715	0.61
Isoniazid02	-0.288	0.153
Rifampicin4	0.252	0.975
Ethambutol3	-0.479	0.188
Meropenem3	0.948	0.352
Vancomycin16	-0.448	0.539
Rv2680_day32	-0.1	-0.471
H37Rv_KO_MarP	-0.155	0.08
hypoxia_3wks	0.044	0.128
hypoxia_6wks	0.758	-0.288
glycerol	-0.219	-0.453
cholesterol	0.323	0.184
AJ	0.439	0.294
Bibs02	-0.842	1.13
Bibs02c	0.483	-0.47
BL6	0.289	0.864
BL6a	0.268	0.528
BXD01	0.853	1.203
BXD010	0.53	0.816
BXD011	0.0	1.745
BXD03	0.302	1.025
BXD04	0.642	0.0
BXD05	-0.293	0.615
BXD06	0.341	0.39
BXD07	0.543	0.602
BXD08	0.193	0.871
BXD09	0.165	1.087
CAST	-0.591	-1.054
CCcont	-0.048	1.179
DS01	0.426	0.503
DS02	0.353	0.142
DS04	0.464	0.929
DS0c	-0.115	-0.231
GP01	-0.685	-0.354
GP02	-0.577	-0.523
GP0c	-0.171	-0.986
NOD	-0.667	-0.239
NZO	0.081	1.306
PWK	-0.583	-1.232
H37Rv_KO_CtpC	0.016	1.545
H37Rv_KO_CtpD	-0.26	1.255
H37Rv_KO_Rv1272	0.688	2.719
H37Rv_KO_SugABC	0.212	2.705
H37Rv_KO_MbtN	1.53	1.924
Trans05	0.576	1.729
macrophage_unactivated	-0.17	1.215
IL1	0.306	-0.089
Rapamycin	0.353	1.114
Tcell	0.909	0.873
GMCSF	0.647	0.51
IFNab	-0.248	0.088
IFNg	-0.11	0.516
IFNg_GMCSF1	-0.258	-1.656
Rv1432_day32	-0.074	-0.411
Rv1565c_day32	0.366	0.3
secA2_input	-1.104	-1.681
delta_Rv3594	0.682	-0.725
delta_Rv3717	0.44	-0.927
delta_Rv3811	0.054	-0.796
delta_Rv0954	-0.6	-1.708
PonA1	-0.199	-0.936
EccD1_KO	0.362	2.111
EspI_KO	-0.054	1.443
PE35_KO	0.895	1.17
PPE68_KO	1.267	1.872
glycerol2	-0.659	0.0
lignocerate	-0.067	0.505
oleate	-0.445	0.0
phosphatidylcholine	0.09	0.415
acetate	-0.455	1.014
glucAc	-0.297	0.487
Rv0950ko	-1.96	-1.354
Rv1096ko	-0.742	-0.835
Rv3684ko	-0.593	-1.179
delta_otsA_trehalose	0.231	-0.836