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 Rv3439c/-

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

	Rv1742/-	Rv3439c/-
Fe_supp_jason_reseq	0.098	-0.661
low_pH_jason_reseq	-0.304	-1.138
NO_jason_reseq	-0.221	-0.41
B6_jason_reseq	0.241	0.863
MHCII_jason_reseq	0.727	0.712
Isoniazid02	-0.065	0.49
Rifampicin4	-0.533	0.501
Ethambutol3	-0.313	0.216
Meropenem3	0.482	0.944
Vancomycin16	-0.326	0.329
Rv2680_day32	-0.393	-0.131
H37Rv_KO_MarP	0.164	0.008
hypoxia_3wks	-0.478	0.064
hypoxia_6wks	-0.29	0.416
glycerol	0.047	0.831
cholesterol	0.179	-0.004
AJ	0.536	0.35
Bibs02	-0.993	-0.852
Bibs02c	-0.061	0.596
BL6	-0.225	-0.167
BL6a	0.092	-0.258
BXD01	-0.76	-0.84
BXD010	-0.187	-0.482
BXD011	-0.478	-0.788
BXD03	-0.14	-0.476
BXD04	-0.222	-1.466
BXD05	-0.133	-0.633
BXD06	-0.466	-0.519
BXD07	-0.657	-0.991
BXD08	-0.573	-0.382
BXD09	-0.213	-0.506
CAST	-0.3	-0.22
CCcont	-0.541	-0.209
DS01	-0.659	0.573
DS02	0.12	0.443
DS04	0.29	-0.131
DS0c	-0.115	0.234
GP01	-1.148	0.022
GP02	0.078	-0.036
GP0c	-0.802	-0.339
NOD	0.683	-0.739
NZO	-0.461	0.533
PWK	0.081	0.507
H37Rv_KO_CtpC	-0.599	-1.21
H37Rv_KO_CtpD	0.956	0.156
H37Rv_KO_Rv1272	0.384	-0.388
H37Rv_KO_SugABC	-0.212	-1.238
H37Rv_KO_MbtN	-0.281	-1.602
Trans05	0.054	-0.711
macrophage_unactivated	-0.669	-0.366
IL1	0.427	-0.184
Rapamycin	0.184	0.301
Tcell	-0.414	-0.831
GMCSF	0.251	0.584
IFNab	-0.094	-0.284
IFNg	0.294	0.04
IFNg_GMCSF1	0.324	-0.452
Rv1432_day32	0.407	0.057
Rv1565c_day32	0.036	0.464
secA2_input	0.667	0.299
delta_Rv3594	0.488	1.716
delta_Rv3717	0.72	1.287
delta_Rv3811	1.28	1.184
delta_Rv0954	0.872	2.106
PonA1	0.268	1.384
EccD1_KO	-0.296	-0.141
EspI_KO	0.764	-0.106
PE35_KO	-0.128	-0.403
PPE68_KO	0.24	-0.765
glycerol2	-0.343	0.394
lignocerate	0.189	0.43
oleate	-0.03	-0.37
phosphatidylcholine	-0.014	0.09
acetate	-0.233	-1.037
glucAc	-0.145	-0.233
Rv0950ko	0.645	-0.112
Rv1096ko	-0.112	0.365
Rv3684ko	0.193	0.039
delta_otsA_trehalose	0.789	0.507