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 Rv1121/zwf1:

update plot	correlation	link to info on gene
Rv1869c/-	(cc=0.4784)	info on Rv1869c/-
Rv2492/-	(cc=0.4686)	info on Rv2492/-
Rv2435c/-	(cc=0.4466)	info on Rv2435c/-
Rv1519/-	(cc=0.4457)	info on Rv1519/-
Rv1966/mce3A	(cc=0.442)	info on Rv1966/mce3A
Rv3105c/prfB	(cc=0.4244)	info on Rv3105c/prfB
Rv2303c/-	(cc=0.4231)	info on Rv2303c/-
Rv3224/-	(cc=0.4206)	info on Rv3224/-
Rv1428c/-	(cc=0.4193)	info on Rv1428c/-
Rv1336/cysM	(cc=0.419)	info on Rv1336/cysM

Correlation of Rv1121/zwf1 with Rv1966/mce3A

Normalized LFCs for Rv1121/zwf1:
(description and provenance of datasets)

	Rv1121/zwf1	Rv1966/mce3A
Fe_supp_jason_reseq	0.234	-0.398
low_pH_jason_reseq	0.408	-0.08
NO_jason_reseq	-0.633	0.152
B6_jason_reseq	0.0	-1.454
MHCII_jason_reseq	0.579	-0.572
Isoniazid02	1.187	0.298
Rifampicin4	-0.284	0.338
Ethambutol3	1.047	1.409
Meropenem3	2.134	0.295
Vancomycin16	-0.164	0.414
Rv2680_day32	-1.321	-0.197
H37Rv_KO_MarP	0.09	-0.488
hypoxia_3wks	1.447	0.55
hypoxia_6wks	1.748	-0.096
glycerol	-0.36	-0.661
cholesterol	-0.367	-1.068
AJ	0.353	0.492
Bibs02	0.884	0.71
Bibs02c	-1.647	-0.665
BL6	-0.784	0.755
BL6a	0.595	0.255
BXD01	0.889	-0.172
BXD010	1.479	0.623
BXD011	1.418	0.393
BXD03	1.232	0.258
BXD04	0.372	0.275
BXD05	0.814	-0.026
BXD06	1.097	0.379
BXD07	0.306	0.087
BXD08	0.743	0.807
BXD09	1.142	0.632
CAST	1.023	0.475
CCcont	-0.679	-0.373
DS01	0.048	-0.294
DS02	-0.046	0.124
DS04	-0.443	-0.344
DS0c	-0.666	-0.748
GP01	0.425	0.793
GP02	-0.655	0.979
GP0c	-0.082	0.516
NOD	-0.295	1.076
NZO	1.361	-0.354
PWK	0.117	0.405
H37Rv_KO_CtpC	1.02	0.446
H37Rv_KO_CtpD	0.493	0.81
H37Rv_KO_Rv1272	1.866	0.965
H37Rv_KO_SugABC	0.796	-0.827
H37Rv_KO_MbtN	0.659	1.179
Trans05	0.665	0.689
macrophage_unactivated	-1.07	-0.145
IL1	0.0	-0.231
Rapamycin	1.439	-0.046
Tcell	0.613	-0.15
GMCSF	-0.676	0.47
IFNab	-0.103	-0.26
IFNg	0.219	-0.061
IFNg_GMCSF1	-0.559	-0.119
Rv1432_day32	0.763	0.176
Rv1565c_day32	0.221	0.366
secA2_input	0.855	0.485
delta_Rv3594	0.228	0.026
delta_Rv3717	0.438	0.031
delta_Rv3811	-0.12	-0.451
delta_Rv0954	-0.216	-0.997
PonA1	-0.03	0.255
EccD1_KO	0.27	0.737
EspI_KO	1.417	1.474
PE35_KO	1.21	0.983
PPE68_KO	1.261	1.261
glycerol2	0.076	-0.38
lignocerate	-0.418	-0.694
oleate	0.292	0.332
phosphatidylcholine	0.0	-0.181
acetate	-0.191	-1.044
glucAc	-0.724	-0.994
Rv0950ko	-0.235	0.063
Rv1096ko	-0.419	0.371
Rv3684ko	-0.596	0.498
delta_otsA_trehalose	1.71	1.92