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 Rv1742/-:

update plot	correlation	link to info on gene
Rv0621/-	(cc=0.5183)	info on Rv0621/-
Rv1028c/kdpD	(cc=0.5055)	info on Rv1028c/kdpD
Rv3392c/cmaA1	(cc=0.4832)	info on Rv3392c/cmaA1
Rv2787/-	(cc=0.478)	info on Rv2787/-
Rv3439c/-	(cc=0.4747)	info on Rv3439c/-
Rv1291c/-	(cc=0.4655)	info on Rv1291c/-
Rv3093c/-	(cc=0.4641)	info on Rv3093c/-
Rv3078/hab	(cc=0.4607)	info on Rv3078/hab
Rv3362c/-	(cc=0.4593)	info on Rv3362c/-
Rv0724A/-	(cc=0.454)	info on Rv0724A/-

Correlation of Rv1742/- with Rv3392c/cmaA1

Normalized LFCs for Rv1742/-:
(description and provenance of datasets)

	Rv1742/-	Rv3392c/cmaA1
Fe_supp_jason_reseq	0.098	0.373
low_pH_jason_reseq	-0.304	0.783
NO_jason_reseq	-0.221	-1.748
B6_jason_reseq	0.241	0.085
MHCII_jason_reseq	0.727	1.089
Isoniazid02	-0.065	0.054
Rifampicin4	-0.533	-0.772
Ethambutol3	-0.313	-0.14
Meropenem3	0.482	0.086
Vancomycin16	-0.326	0.329
Rv2680_day32	-0.393	-0.365
H37Rv_KO_MarP	0.164	0.689
hypoxia_3wks	-0.478	0.319
hypoxia_6wks	-0.29	1.244
glycerol	0.047	0.844
cholesterol	0.179	0.07
AJ	0.536	0.726
Bibs02	-0.993	-1.179
Bibs02c	-0.061	0.55
BL6	-0.225	-0.731
BL6a	0.092	0.936
BXD01	-0.76	0.309
BXD010	-0.187	-0.206
BXD011	-0.478	0.742
BXD03	-0.14	0.227
BXD04	-0.222	0.208
BXD05	-0.133	1.133
BXD06	-0.466	0.482
BXD07	-0.657	0.725
BXD08	-0.573	0.656
BXD09	-0.213	0.387
CAST	-0.3	-0.462
CCcont	-0.541	-0.633
DS01	-0.659	1.237
DS02	0.12	1.267
DS04	0.29	-0.167
DS0c	-0.115	0.484
GP01	-1.148	-1.899
GP02	0.078	-0.955
GP0c	-0.802	-1.78
NOD	0.683	0.532
NZO	-0.461	-0.481
PWK	0.081	1.124
H37Rv_KO_CtpC	-0.599	0.625
H37Rv_KO_CtpD	0.956	0.853
H37Rv_KO_Rv1272	0.384	-0.745
H37Rv_KO_SugABC	-0.212	0.984
H37Rv_KO_MbtN	-0.281	1.266
Trans05	0.054	0.456
macrophage_unactivated	-0.669	-0.051
IL1	0.427	0.181
Rapamycin	0.184	0.0
Tcell	-0.414	-0.264
GMCSF	0.251	0.784
IFNab	-0.094	0.78
IFNg	0.294	-0.444
IFNg_GMCSF1	0.324	-0.578
Rv1432_day32	0.407	0.394
Rv1565c_day32	0.036	-0.283
secA2_input	0.667	0.85
delta_Rv3594	0.488	2.022
delta_Rv3717	0.72	2.085
delta_Rv3811	1.28	2.411
delta_Rv0954	0.872	2.335
PonA1	0.268	1.021
EccD1_KO	-0.296	0.47
EspI_KO	0.764	1.075
PE35_KO	-0.128	0.61
PPE68_KO	0.24	1.206
glycerol2	-0.343	-0.474
lignocerate	0.189	-0.363
oleate	-0.03	0.0
phosphatidylcholine	-0.014	-0.21
acetate	-0.233	-0.027
glucAc	-0.145	-1.118
Rv0950ko	0.645	0.763
Rv1096ko	-0.112	0.712
Rv3684ko	0.193	1.094
delta_otsA_trehalose	0.789	-0.239