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 Rv0828c/-

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

	Rv2331/-	Rv0828c/-
Fe_supp_jason_reseq	0.069	-0.395
low_pH_jason_reseq	-0.589	-0.385
NO_jason_reseq	0.961	0.47
B6_jason_reseq	1.602	0.404
MHCII_jason_reseq	0.799	0.311
Isoniazid02	0.511	-0.883
Rifampicin4	-1.338	-0.276
Ethambutol3	-0.336	0.516
Meropenem3	-0.456	-0.4
Vancomycin16	-0.348	-0.515
Rv2680_day32	-2.26	-1.133
H37Rv_KO_MarP	-0.056	0.196
hypoxia_3wks	0.415	0.486
hypoxia_6wks	0.357	0.345
glycerol	-1.695	-0.345
cholesterol	-0.126	-0.055
AJ	0.486	0.032
Bibs02	0.611	-0.101
Bibs02c	0.259	0.182
BL6	1.479	-0.009
BL6a	0.343	0.334
BXD01	0.273	-0.084
BXD010	0.322	0.086
BXD011	0.333	0.663
BXD03	0.273	0.223
BXD04	1.132	-0.146
BXD05	0.766	0.418
BXD06	0.774	-0.025
BXD07	0.66	-0.072
BXD08	0.353	-0.038
BXD09	0.443	0.172
CAST	0.739	0.155
CCcont	-0.587	-0.567
DS01	0.0	0.626
DS02	0.057	0.857
DS04	0.586	0.791
DS0c	0.251	0.548
GP01	-3.176	-0.566
GP02	-1.929	-1.186
GP0c	-3.762	-0.767
NOD	1.593	0.379
NZO	-0.27	0.126
PWK	0.043	0.408
H37Rv_KO_CtpC	-1.923	0.138
H37Rv_KO_CtpD	0.579	0.063
H37Rv_KO_Rv1272	0.946	0.199
H37Rv_KO_SugABC	-0.053	0.56
H37Rv_KO_MbtN	-2.132	0.052
Trans05	0.629	0.065
macrophage_unactivated	-1.326	0.019
IL1	0.742	-0.219
Rapamycin	-0.175	-0.196
Tcell	0.502	-0.104
GMCSF	-0.422	-0.042
IFNab	-1.956	-0.184
IFNg	-0.521	-0.182
IFNg_GMCSF1	-0.666	0.05
Rv1432_day32	0.314	-0.086
Rv1565c_day32	-0.245	-0.011
secA2_input	0.618	0.055
delta_Rv3594	0.477	0.289
delta_Rv3717	-0.458	0.053
delta_Rv3811	0.269	-0.638
delta_Rv0954	0.249	0.163
PonA1	0.407	0.095
EccD1_KO	0.599	-0.671
EspI_KO	0.519	-0.023
PE35_KO	0.318	-0.802
PPE68_KO	0.202	-0.637
glycerol2	0.207	0.362
lignocerate	0.81	0.201
oleate	-0.362	0.407
phosphatidylcholine	0.861	0.585
acetate	-0.18	-0.489
glucAc	0.439	-0.207
Rv0950ko	-0.443	0.286
Rv1096ko	-0.98	0.175
Rv3684ko	-1.461	0.219
delta_otsA_trehalose	-0.364	-0.595