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 Rv1528c/papA4

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

	Rv2331/-	Rv1528c/papA4
Fe_supp_jason_reseq	0.069	-1.628
low_pH_jason_reseq	-0.589	-0.105
NO_jason_reseq	0.961	-0.73
B6_jason_reseq	1.602	0.215
MHCII_jason_reseq	0.799	1.047
Isoniazid02	0.511	0.511
Rifampicin4	-1.338	-0.341
Ethambutol3	-0.336	0.743
Meropenem3	-0.456	0.67
Vancomycin16	-0.348	0.308
Rv2680_day32	-2.26	-1.157
H37Rv_KO_MarP	-0.056	-0.332
hypoxia_3wks	0.415	-0.064
hypoxia_6wks	0.357	-0.441
glycerol	-1.695	0.366
cholesterol	-0.126	-0.374
AJ	0.486	0.526
Bibs02	0.611	1.032
Bibs02c	0.259	0.038
BL6	1.479	-0.945
BL6a	0.343	0.489
BXD01	0.273	-0.135
BXD010	0.322	-1.142
BXD011	0.333	0.387
BXD03	0.273	0.058
BXD04	1.132	0.733
BXD05	0.766	-0.206
BXD06	0.774	0.214
BXD07	0.66	-0.436
BXD08	0.353	0.119
BXD09	0.443	0.164
CAST	0.739	0.953
CCcont	-0.587	-0.772
DS01	0.0	0.695
DS02	0.057	-0.317
DS04	0.586	1.476
DS0c	0.251	1.07
GP01	-3.176	-2.152
GP02	-1.929	-1.947
GP0c	-3.762	-2.492
NOD	1.593	0.937
NZO	-0.27	0.587
PWK	0.043	0.685
H37Rv_KO_CtpC	-1.923	-0.191
H37Rv_KO_CtpD	0.579	0.853
H37Rv_KO_Rv1272	0.946	0.89
H37Rv_KO_SugABC	-0.053	0.401
H37Rv_KO_MbtN	-2.132	0.925
Trans05	0.629	-0.347
macrophage_unactivated	-1.326	-0.732
IL1	0.742	-0.409
Rapamycin	-0.175	-0.396
Tcell	0.502	-0.055
GMCSF	-0.422	0.108
IFNab	-1.956	0.193
IFNg	-0.521	-0.158
IFNg_GMCSF1	-0.666	0.079
Rv1432_day32	0.314	0.0
Rv1565c_day32	-0.245	0.602
secA2_input	0.618	0.643
delta_Rv3594	0.477	-0.249
delta_Rv3717	-0.458	-1.073
delta_Rv3811	0.269	-0.968
delta_Rv0954	0.249	-0.261
PonA1	0.407	-0.452
EccD1_KO	0.599	-0.605
EspI_KO	0.519	-0.724
PE35_KO	0.318	0.149
PPE68_KO	0.202	-0.528
glycerol2	0.207	-0.01
lignocerate	0.81	-0.163
oleate	-0.362	0.276
phosphatidylcholine	0.861	0.083
acetate	-0.18	-0.286
glucAc	0.439	-0.602
Rv0950ko	-0.443	0.51
Rv1096ko	-0.98	-0.359
Rv3684ko	-1.461	-0.72
delta_otsA_trehalose	-0.364	-0.145