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 Rv3251c/rubA:

update plot	correlation	link to info on gene
Rv2140c/TB18.6	(cc=0.4828)	info on Rv2140c/TB18.6
Rv1819c/bacA	(cc=0.4461)	info on Rv1819c/bacA
Rv2613c/-	(cc=0.4176)	info on Rv2613c/-
Rv1473/-	(cc=0.4141)	info on Rv1473/-
Rv0839/-	(cc=0.4065)	info on Rv0839/-
Rv3055/-	(cc=0.394)	info on Rv3055/-
Rv2359/zur	(cc=0.3867)	info on Rv2359/zur
Rv1541c/lprI	(cc=0.3831)	info on Rv1541c/lprI
Rv2409c/-	(cc=0.3808)	info on Rv2409c/-
Rv2599/-	(cc=0.3806)	info on Rv2599/-

Correlation of Rv3251c/rubA with Rv0839/-

Normalized LFCs for Rv3251c/rubA:
(description and provenance of datasets)

	Rv3251c/rubA	Rv0839/-
Fe_supp_jason_reseq	0.575	0.63
low_pH_jason_reseq	-1.574	-0.865
NO_jason_reseq	0.221	0.845
B6_jason_reseq	-0.698	-0.214
MHCII_jason_reseq	0.698	-0.189
Isoniazid02	-1.745	0.914
Rifampicin4	0.896	0.046
Ethambutol3	0.805	0.328
Meropenem3	0.703	0.131
Vancomycin16	-0.085	0.093
Rv2680_day32	1.918	0.356
H37Rv_KO_MarP	0.607	0.402
hypoxia_3wks	-1.128	-0.259
hypoxia_6wks	-0.332	0.476
glycerol	0.679	-0.048
cholesterol	0.205	-0.519
AJ	-0.294	-0.069
Bibs02	-1.086	-0.429
Bibs02c	0.555	0.286
BL6	-0.34	0.215
BL6a	-0.778	0.23
BXD01	-0.585	-0.07
BXD010	-1.455	0.347
BXD011	0.228	0.194
BXD03	-0.088	0.348
BXD04	-0.762	0.029
BXD05	-0.043	-0.376
BXD06	0.239	-0.165
BXD07	-0.343	0.197
BXD08	0.009	0.55
BXD09	-0.282	-0.27
CAST	-0.292	-0.04
CCcont	0.639	0.378
DS01	-0.842	0.082
DS02	-1.292	-0.928
DS04	-0.988	-0.177
DS0c	-0.812	0.489
GP01	0.614	0.868
GP02	-1.306	0.341
GP0c	-1.213	0.365
NOD	-0.116	0.858
NZO	0.49	-0.071
PWK	0.287	0.347
H37Rv_KO_CtpC	1.016	0.295
H37Rv_KO_CtpD	0.391	1.904
H37Rv_KO_Rv1272	-0.179	-0.438
H37Rv_KO_SugABC	0.705	0.362
H37Rv_KO_MbtN	-0.434	0.119
Trans05	0.032	-0.288
macrophage_unactivated	1.411	0.309
IL1	-0.86	0.311
Rapamycin	0.0	1.022
Tcell	-0.108	0.176
GMCSF	-1.019	0.182
IFNab	-1.04	0.363
IFNg	-2.673	0.102
IFNg_GMCSF1	0.902	0.509
Rv1432_day32	0.164	-0.532
Rv1565c_day32	0.466	0.69
secA2_input	0.412	0.759
delta_Rv3594	0.219	0.083
delta_Rv3717	-0.75	-0.477
delta_Rv3811	0.47	0.259
delta_Rv0954	0.579	0.116
PonA1	-0.223	-0.01
EccD1_KO	1.513	0.776
EspI_KO	1.5	0.776
PE35_KO	1.243	1.068
PPE68_KO	1.881	1.552
glycerol2	0.73	0.581
lignocerate	0.319	0.667
oleate	-0.214	0.208
phosphatidylcholine	0.398	0.447
acetate	-0.03	-0.091
glucAc	0.513	0.216
Rv0950ko	0.311	0.317
Rv1096ko	-0.498	0.501
Rv3684ko	-0.517	0.642
delta_otsA_trehalose	-1.796	-0.636