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 Rv2295/-:

update plot	correlation	link to info on gene
Rv2913c/-	(cc=0.5199)	info on Rv2913c/-
Rv2136c/-	(cc=0.519)	info on Rv2136c/-
Rv1135c/PPE16	(cc=0.4995)	info on Rv1135c/PPE16
Rv3607c/folB	(cc=0.4939)	info on Rv3607c/folB
Rv2971/-	(cc=0.4926)	info on Rv2971/-
Rv2599/-	(cc=0.4727)	info on Rv2599/-
Rv1313c/-	(cc=0.4587)	info on Rv1313c/-
Rv3798/-	(cc=0.456)	info on Rv3798/-
Rv2089c/pepE	(cc=0.4552)	info on Rv2089c/pepE
Rv2174/mptA	(cc=0.4515)	info on Rv2174/mptA

Correlation of Rv2295/- with Rv1313c/-

Normalized LFCs for Rv2295/-:
(description and provenance of datasets)

	Rv2295/-	Rv1313c/-
Fe_supp_jason_reseq	-0.469	-0.309
low_pH_jason_reseq	-0.375	-0.36
NO_jason_reseq	-0.27	0.315
B6_jason_reseq	-0.341	-0.261
MHCII_jason_reseq	0.692	0.267
Isoniazid02	0.183	0.157
Rifampicin4	0.341	0.563
Ethambutol3	1.262	0.985
Meropenem3	-0.152	0.174
Vancomycin16	0.281	0.106
Rv2680_day32	-1.558	-0.277
H37Rv_KO_MarP	-0.33	-0.062
hypoxia_3wks	0.128	0.447
hypoxia_6wks	0.117	-0.031
glycerol	-0.645	0.707
cholesterol	-0.305	0.404
AJ	0.373	0.753
Bibs02	0.734	0.37
Bibs02c	-0.343	0.25
BL6	-0.798	-0.355
BL6a	-0.261	0.174
BXD01	-0.029	0.09
BXD010	0.438	0.032
BXD011	0.34	0.971
BXD03	-0.443	0.168
BXD04	-0.622	-0.233
BXD05	0.13	-0.106
BXD06	0.102	-0.091
BXD07	0.32	0.454
BXD08	-0.488	0.269
BXD09	-0.132	-0.158
CAST	-0.956	0.532
CCcont	-0.737	-0.185
DS01	0.426	-0.135
DS02	0.914	0.25
DS04	1.126	0.433
DS0c	-0.025	0.346
GP01	-0.561	0.735
GP02	-0.228	0.133
GP0c	-0.213	-0.605
NOD	-0.877	0.591
NZO	0.487	0.108
PWK	-0.102	0.784
H37Rv_KO_CtpC	-0.647	0.194
H37Rv_KO_CtpD	0.386	-0.738
H37Rv_KO_Rv1272	-0.843	0.212
H37Rv_KO_SugABC	0.555	1.0
H37Rv_KO_MbtN	0.062	1.437
Trans05	0.504	0.15
macrophage_unactivated	-1.266	-0.328
IL1	-0.507	0.039
Rapamycin	-0.525	-0.577
Tcell	-1.131	-1.157
GMCSF	-0.23	-0.187
IFNab	-0.813	-0.484
IFNg	-0.094	-0.208
IFNg_GMCSF1	-1.32	-0.437
Rv1432_day32	0.683	0.267
Rv1565c_day32	0.096	-0.016
secA2_input	0.866	0.028
delta_Rv3594	1.075	0.86
delta_Rv3717	0.31	0.792
delta_Rv3811	0.787	0.836
delta_Rv0954	0.889	0.416
PonA1	0.891	0.392
EccD1_KO	0.687	0.345
EspI_KO	1.229	0.63
PE35_KO	0.61	1.105
PPE68_KO	1.353	0.765
glycerol2	-0.084	-0.447
lignocerate	-0.464	-0.462
oleate	0.159	-0.763
phosphatidylcholine	-0.457	-0.482
acetate	-0.667	-0.188
glucAc	0.211	0.493
Rv0950ko	0.326	0.534
Rv1096ko	-0.404	0.407
Rv3684ko	-1.153	0.442
delta_otsA_trehalose	0.356	-0.119