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 Rv2331/-:

update plot	correlation	link to info on gene
Rv1516c/-	(cc=0.4543)	info on Rv1516c/-
Rv2332/mez	(cc=0.4452)	info on Rv2332/mez
Rv1528c/papA4	(cc=0.442)	info on Rv1528c/papA4
Rv2478c/-	(cc=0.4264)	info on Rv2478c/-
Rv0052/-	(cc=0.4213)	info on Rv0052/-
Rv2915c/-	(cc=0.4194)	info on Rv2915c/-
Rv0828c/-	(cc=0.4164)	info on Rv0828c/-
Rv0846c/-	(cc=0.4028)	info on Rv0846c/-
Rv1151c/-	(cc=0.4021)	info on Rv1151c/-
Rv2329c/narK1	(cc=0.3937)	info on Rv2329c/narK1

Correlation of Rv2331/- with Rv0052/-

Normalized LFCs for Rv2331/-:
(description and provenance of datasets)

	Rv2331/-	Rv0052/-
Fe_supp_jason_reseq	0.069	0.502
low_pH_jason_reseq	-0.589	-0.336
NO_jason_reseq	0.961	0.643
B6_jason_reseq	1.602	0.186
MHCII_jason_reseq	0.799	0.319
Isoniazid02	0.511	-0.425
Rifampicin4	-1.338	-0.766
Ethambutol3	-0.336	0.589
Meropenem3	-0.456	-0.629
Vancomycin16	-0.348	-0.223
Rv2680_day32	-2.26	-1.275
H37Rv_KO_MarP	-0.056	1.122
hypoxia_3wks	0.415	0.116
hypoxia_6wks	0.357	0.244
glycerol	-1.695	0.6
cholesterol	-0.126	-0.04
AJ	0.486	0.03
Bibs02	0.611	0.836
Bibs02c	0.259	0.202
BL6	1.479	0.62
BL6a	0.343	1.126
BXD01	0.273	0.97
BXD010	0.322	1.161
BXD011	0.333	1.033
BXD03	0.273	1.143
BXD04	1.132	0.56
BXD05	0.766	1.25
BXD06	0.774	1.112
BXD07	0.66	0.882
BXD08	0.353	1.05
BXD09	0.443	1.046
CAST	0.739	-0.21
CCcont	-0.587	1.235
DS01	0.0	0.503
DS02	0.057	0.378
DS04	0.586	1.886
DS0c	0.251	-0.58
GP01	-3.176	-0.669
GP02	-1.929	-0.84
GP0c	-3.762	-0.738
NOD	1.593	0.724
NZO	-0.27	-0.124
PWK	0.043	0.418
H37Rv_KO_CtpC	-1.923	-0.161
H37Rv_KO_CtpD	0.579	1.366
H37Rv_KO_Rv1272	0.946	0.807
H37Rv_KO_SugABC	-0.053	0.763
H37Rv_KO_MbtN	-2.132	0.048
Trans05	0.629	1.464
macrophage_unactivated	-1.326	-0.161
IL1	0.742	0.667
Rapamycin	-0.175	1.139
Tcell	0.502	0.87
GMCSF	-0.422	0.457
IFNab	-1.956	0.831
IFNg	-0.521	0.812
IFNg_GMCSF1	-0.666	0.707
Rv1432_day32	0.314	0.51
Rv1565c_day32	-0.245	0.0
secA2_input	0.618	0.426
delta_Rv3594	0.477	0.099
delta_Rv3717	-0.458	-0.695
delta_Rv3811	0.269	-0.498
delta_Rv0954	0.249	0.009
PonA1	0.407	0.262
EccD1_KO	0.599	-0.243
EspI_KO	0.519	-0.573
PE35_KO	0.318	-0.193
PPE68_KO	0.202	0.269
glycerol2	0.207	0.28
lignocerate	0.81	-0.013
oleate	-0.362	0.132
phosphatidylcholine	0.861	0.081
acetate	-0.18	-0.214
glucAc	0.439	-0.011
Rv0950ko	-0.443	0.488
Rv1096ko	-0.98	1.173
Rv3684ko	-1.461	-0.291
delta_otsA_trehalose	-0.364	-0.16