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 Rv0893c/-:

update plot	correlation	link to info on gene
Rv1199c/-	(cc=0.5739)	info on Rv1199c/-
Rv2512c/-	(cc=0.5406)	info on Rv2512c/-
Rv0755c/PPE12	(cc=0.5152)	info on Rv0755c/PPE12
Rv1676/-	(cc=0.48)	info on Rv1676/-
Rv1260/-	(cc=0.4587)	info on Rv1260/-
Rv3115/-	(cc=0.4523)	info on Rv3115/-
Rv1597/-	(cc=0.4394)	info on Rv1597/-
Rv2176/pknL	(cc=0.4386)	info on Rv2176/pknL
Rv3679/-	(cc=0.4238)	info on Rv3679/-
Rv2432c/-	(cc=0.4196)	info on Rv2432c/-

Correlation of Rv0893c/- with Rv3115/-

Normalized LFCs for Rv0893c/-:
(description and provenance of datasets)

	Rv0893c/-	Rv3115/-
Fe_supp_jason_reseq	-1.626	-0.863
low_pH_jason_reseq	0.448	-0.112
NO_jason_reseq	0.953	-0.454
B6_jason_reseq	-0.449	-0.205
MHCII_jason_reseq	0.189	-0.145
Isoniazid02	0.0	-1.094
Rifampicin4	0.0	0.263
Ethambutol3	-0.281	-0.495
Meropenem3	-0.435	-0.155
Vancomycin16	0.528	-0.743
Rv2680_day32	0.337	0.457
H37Rv_KO_MarP	0.26	-0.299
hypoxia_3wks	0.183	0.315
hypoxia_6wks	0.691	-0.631
glycerol	0.66	0.022
cholesterol	0.358	-0.27
AJ	0.232	0.847
Bibs02	2.078	0.864
Bibs02c	0.684	1.378
BL6	0.0	-0.082
BL6a	0.544	0.839
BXD01	-0.361	0.57
BXD010	0.513	0.409
BXD011	0.315	0.247
BXD03	0.664	0.737
BXD04	0.66	0.617
BXD05	1.397	0.724
BXD06	0.401	0.546
BXD07	0.182	0.691
BXD08	-0.431	0.35
BXD09	0.268	0.482
CAST	0.078	0.789
CCcont	-0.053	0.048
DS01	1.947	0.416
DS02	1.613	0.922
DS04	1.192	0.679
DS0c	1.332	0.459
GP01	-0.715	0.242
GP02	-0.159	0.437
GP0c	0.694	0.252
NOD	-0.08	0.752
NZO	0.068	0.351
PWK	-0.216	0.516
H37Rv_KO_CtpC	1.028	0.916
H37Rv_KO_CtpD	1.658	0.384
H37Rv_KO_Rv1272	1.093	0.776
H37Rv_KO_SugABC	0.751	0.918
H37Rv_KO_MbtN	-0.24	0.114
Trans05	-0.363	0.918
macrophage_unactivated	-0.275	0.552
IL1	-0.258	0.068
Rapamycin	-0.703	-0.221
Tcell	-0.433	-1.303
GMCSF	-0.605	-0.319
IFNab	0.0	-0.366
IFNg	-0.484	-0.291
IFNg_GMCSF1	-0.88	-0.148
Rv1432_day32	0.0	-0.083
Rv1565c_day32	0.234	0.357
secA2_input	-0.787	-0.225
delta_Rv3594	0.616	0.246
delta_Rv3717	-0.185	-0.101
delta_Rv3811	0.321	0.068
delta_Rv0954	-0.328	0.116
PonA1	-0.293	-0.426
EccD1_KO	0.263	-0.23
EspI_KO	0.117	0.516
PE35_KO	0.455	0.7
PPE68_KO	-0.272	-0.045
glycerol2	0.559	-1.113
lignocerate	0.913	-0.76
oleate	-0.411	-0.885
phosphatidylcholine	0.559	-0.713
acetate	0.743	1.172
glucAc	0.605	0.091
Rv0950ko	-0.899	-0.362
Rv1096ko	-0.633	-0.76
Rv3684ko	-1.074	-1.15
delta_otsA_trehalose	-0.491	-0.404