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 Rv3119/moaE1:

update plot	correlation	link to info on gene
Rv1584c/-	(cc=0.4512)	info on Rv1584c/-
Rv3190c/-	(cc=0.4262)	info on Rv3190c/-
Rv0281/-	(cc=0.4063)	info on Rv0281/-
Rv1902c/nanT	(cc=0.4054)	info on Rv1902c/nanT
Rv1562c/treZ	(cc=0.4044)	info on Rv1562c/treZ
Rv2685/arsB1	(cc=0.4029)	info on Rv2685/arsB1
Rv1073/-	(cc=0.3989)	info on Rv1073/-
Rv0317c/glpQ2	(cc=0.3919)	info on Rv0317c/glpQ2
Rv1785c/cyp143	(cc=0.3828)	info on Rv1785c/cyp143
Rv0919/-	(cc=0.3779)	info on Rv0919/-

Correlation of Rv3119/moaE1 with Rv1562c/treZ

Normalized LFCs for Rv3119/moaE1:
(description and provenance of datasets)

	Rv3119/moaE1	Rv1562c/treZ
Fe_supp_jason_reseq	0.145	0.761
low_pH_jason_reseq	-0.532	0.773
NO_jason_reseq	-0.381	-0.882
B6_jason_reseq	-0.305	-0.093
MHCII_jason_reseq	0.904	0.508
Isoniazid02	0.57	0.937
Rifampicin4	0.2	0.236
Ethambutol3	0.258	0.036
Meropenem3	0.379	0.036
Vancomycin16	0.019	0.791
Rv2680_day32	1.529	0.321
H37Rv_KO_MarP	0.446	-0.035
hypoxia_3wks	-0.327	-0.478
hypoxia_6wks	-0.336	0.288
glycerol	0.739	-0.771
cholesterol	0.114	0.281
AJ	-0.978	0.61
Bibs02	0.742	-0.121
Bibs02c	0.3	0.717
BL6	-0.483	0.865
BL6a	-0.319	0.739
BXD01	-0.232	-0.382
BXD010	-0.288	-0.34
BXD011	-0.006	0.0
BXD03	0.142	0.421
BXD04	-0.006	0.077
BXD05	0.323	0.599
BXD06	-0.106	0.981
BXD07	-0.216	-0.03
BXD08	0.191	0.135
BXD09	-0.475	0.247
CAST	0.192	0.993
CCcont	-0.651	1.098
DS01	-0.226	0.541
DS02	-0.339	-0.518
DS04	-0.096	1.694
DS0c	-0.185	0.178
GP01	1.122	0.683
GP02	1.078	0.162
GP0c	-0.084	0.465
NOD	-0.215	0.047
NZO	-0.623	-0.475
PWK	-1.488	1.056
H37Rv_KO_CtpC	0.584	0.653
H37Rv_KO_CtpD	0.065	0.053
H37Rv_KO_Rv1272	-0.369	-0.192
H37Rv_KO_SugABC	1.52	0.663
H37Rv_KO_MbtN	-0.046	0.965
Trans05	0.807	-0.057
macrophage_unactivated	0.237	-0.076
IL1	-0.578	0.068
Rapamycin	0.258	-0.457
Tcell	0.244	0.0
GMCSF	0.269	-0.325
IFNab	-0.46	-0.145
IFNg	-0.211	-0.329
IFNg_GMCSF1	0.852	0.148
Rv1432_day32	0.263	0.222
Rv1565c_day32	-1.257	0.458
secA2_input	-1.115	-0.153
delta_Rv3594	0.08	-0.087
delta_Rv3717	-0.299	0.378
delta_Rv3811	0.758	0.08
delta_Rv0954	-0.664	-0.036
PonA1	-0.087	0.876
EccD1_KO	-0.441	0.322
EspI_KO	0.023	0.071
PE35_KO	1.062	1.155
PPE68_KO	0.685	0.534
glycerol2	0.036	0.736
lignocerate	0.114	1.084
oleate	0.313	-1.012
phosphatidylcholine	0.143	0.556
acetate	0.086	1.416
glucAc	0.164	1.459
Rv0950ko	-0.38	-0.238
Rv1096ko	-0.875	-0.829
Rv3684ko	-1.015	-0.75
delta_otsA_trehalose	2.681	5.496