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 Rv3224/-

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

	Rv1121/zwf1	Rv3224/-
Fe_supp_jason_reseq	0.234	-0.543
low_pH_jason_reseq	0.408	-0.482
NO_jason_reseq	-0.633	-0.402
B6_jason_reseq	0.0	0.656
MHCII_jason_reseq	0.579	0.222
Isoniazid02	1.187	0.365
Rifampicin4	-0.284	-0.116
Ethambutol3	1.047	1.892
Meropenem3	2.134	0.788
Vancomycin16	-0.164	0.048
Rv2680_day32	-1.321	0.111
H37Rv_KO_MarP	0.09	-0.175
hypoxia_3wks	1.447	0.183
hypoxia_6wks	1.748	0.426
glycerol	-0.36	-0.933
cholesterol	-0.367	-0.451
AJ	0.353	-0.145
Bibs02	0.884	-0.253
Bibs02c	-1.647	0.177
BL6	-0.784	0.468
BL6a	0.595	0.26
BXD01	0.889	0.571
BXD010	1.479	0.657
BXD011	1.418	0.51
BXD03	1.232	0.196
BXD04	0.372	0.529
BXD05	0.814	0.464
BXD06	1.097	0.582
BXD07	0.306	0.655
BXD08	0.743	0.661
BXD09	1.142	0.443
CAST	1.023	0.409
CCcont	-0.679	-0.314
DS01	0.048	0.08
DS02	-0.046	0.438
DS04	-0.443	0.194
DS0c	-0.666	-0.357
GP01	0.425	1.121
GP02	-0.655	0.168
GP0c	-0.082	0.217
NOD	-0.295	0.132
NZO	1.361	0.051
PWK	0.117	-0.202
H37Rv_KO_CtpC	1.02	0.261
H37Rv_KO_CtpD	0.493	0.824
H37Rv_KO_Rv1272	1.866	0.231
H37Rv_KO_SugABC	0.796	0.992
H37Rv_KO_MbtN	0.659	0.594
Trans05	0.665	0.5
macrophage_unactivated	-1.07	-0.496
IL1	0.0	-0.205
Rapamycin	1.439	-0.402
Tcell	0.613	-0.134
GMCSF	-0.676	-0.193
IFNab	-0.103	-0.124
IFNg	0.219	-0.679
IFNg_GMCSF1	-0.559	-0.399
Rv1432_day32	0.763	0.679
Rv1565c_day32	0.221	-0.259
secA2_input	0.855	-0.091
delta_Rv3594	0.228	0.239
delta_Rv3717	0.438	0.539
delta_Rv3811	-0.12	0.571
delta_Rv0954	-0.216	-0.443
PonA1	-0.03	-0.11
EccD1_KO	0.27	-0.02
EspI_KO	1.417	0.588
PE35_KO	1.21	0.277
PPE68_KO	1.261	0.378
glycerol2	0.076	0.199
lignocerate	-0.418	0.33
oleate	0.292	0.617
phosphatidylcholine	0.0	0.192
acetate	-0.191	-0.043
glucAc	-0.724	-0.299
Rv0950ko	-0.235	-0.145
Rv1096ko	-0.419	-0.13
Rv3684ko	-0.596	0.272
delta_otsA_trehalose	1.71	0.139