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 Rv0124/PE_PGRS2:

update plot	correlation	link to info on gene
Rv0620/galK	(cc=0.4403)	info on Rv0620/galK
Rv0094c/-	(cc=0.424)	info on Rv0094c/-
Rv0279c/PE_PGRS4	(cc=0.42)	info on Rv0279c/PE_PGRS4
Rv0578c/PE_PGRS7	(cc=0.4139)	info on Rv0578c/PE_PGRS7
Rv3467/-	(cc=0.4137)	info on Rv3467/-
Rv1091/PE_PGRS22	(cc=0.4132)	info on Rv1091/PE_PGRS22
Rv3345c/PE_PGRS50	(cc=0.4093)	info on Rv3345c/PE_PGRS50
Rv0393/-	(cc=0.4032)	info on Rv0393/-
Rv1818c/PE_PGRS33	(cc=0.4028)	info on Rv1818c/PE_PGRS33
Rv1468c/PE_PGRS29	(cc=0.4008)	info on Rv1468c/PE_PGRS29

Correlation of Rv0124/PE_PGRS2 with Rv0393/-

Normalized LFCs for Rv0124/PE_PGRS2:
(description and provenance of datasets)

	Rv0124/PE_PGRS2	Rv0393/-
Fe_supp_jason_reseq	-0.627	-0.822
low_pH_jason_reseq	-0.284	0.042
NO_jason_reseq	-0.525	-0.79
B6_jason_reseq	-0.542	0.352
MHCII_jason_reseq	-0.477	-0.898
Isoniazid02	-0.535	-0.109
Rifampicin4	0.671	0.555
Ethambutol3	1.019	0.427
Meropenem3	0.26	0.975
Vancomycin16	0.048	-0.082
Rv2680_day32	-0.183	-0.373
H37Rv_KO_MarP	-0.109	0.689
hypoxia_3wks	-0.407	-0.459
hypoxia_6wks	-1.155	-1.052
glycerol	0.674	0.638
cholesterol	-0.4	0.513
AJ	0.59	0.903
Bibs02	0.874	0.691
Bibs02c	0.239	0.268
BL6	-0.502	0.399
BL6a	-0.156	0.0
BXD01	1.066	0.447
BXD010	-0.764	0.207
BXD011	-0.232	-0.842
BXD03	-0.107	-0.639
BXD04	0.726	0.133
BXD05	0.55	0.265
BXD06	-0.478	-0.274
BXD07	0.566	0.062
BXD08	0.459	1.08
BXD09	0.062	-0.164
CAST	0.325	1.356
CCcont	0.15	0.028
DS01	0.139	0.216
DS02	0.797	0.548
DS04	1.285	0.419
DS0c	-0.556	0.242
GP01	0.393	0.394
GP02	1.174	-0.159
GP0c	0.682	0.114
NOD	0.132	-0.018
NZO	1.591	0.838
PWK	0.0	1.395
H37Rv_KO_CtpC	1.26	0.34
H37Rv_KO_CtpD	-0.657	-0.469
H37Rv_KO_Rv1272	0.701	-0.152
H37Rv_KO_SugABC	-1.391	0.959
H37Rv_KO_MbtN	-0.369	0.132
Trans05	0.0	0.539
macrophage_unactivated	-0.11	-0.685
IL1	-0.377	-0.276
Rapamycin	0.0	0.049
Tcell	-0.87	0.121
GMCSF	-0.092	-0.399
IFNab	-1.203	-1.046
IFNg	0.756	-0.871
IFNg_GMCSF1	-0.644	-0.311
Rv1432_day32	0.205	0.046
Rv1565c_day32	0.036	-1.264
secA2_input	1.393	1.14
delta_Rv3594	0.454	0.017
delta_Rv3717	0.03	0.042
delta_Rv3811	0.158	-0.21
delta_Rv0954	0.062	0.106
PonA1	1.196	0.38
EccD1_KO	-0.164	0.145
EspI_KO	-1.657	-0.459
PE35_KO	-0.939	-0.298
PPE68_KO	-0.413	-0.413
glycerol2	-0.128	0.532
lignocerate	-0.055	0.795
oleate	-0.043	0.275
phosphatidylcholine	-0.41	0.868
acetate	0.768	-0.042
glucAc	0.117	0.332
Rv0950ko	0.766	0.516
Rv1096ko	0.866	1.258
Rv3684ko	1.755	0.193
delta_otsA_trehalose	0.683	-0.147