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 Rv1516c/-

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

	Rv2331/-	Rv1516c/-
Fe_supp_jason_reseq	0.069	0.257
low_pH_jason_reseq	-0.589	-1.027
NO_jason_reseq	0.961	-0.601
B6_jason_reseq	1.602	0.712
MHCII_jason_reseq	0.799	1.498
Isoniazid02	0.511	0.16
Rifampicin4	-1.338	0.043
Ethambutol3	-0.336	0.259
Meropenem3	-0.456	0.956
Vancomycin16	-0.348	0.085
Rv2680_day32	-2.26	-0.913
H37Rv_KO_MarP	-0.056	0.294
hypoxia_3wks	0.415	-0.116
hypoxia_6wks	0.357	-0.152
glycerol	-1.695	0.369
cholesterol	-0.126	-1.422
AJ	0.486	-0.044
Bibs02	0.611	0.244
Bibs02c	0.259	0.75
BL6	1.479	-0.401
BL6a	0.343	-0.057
BXD01	0.273	-0.383
BXD010	0.322	0.048
BXD011	0.333	0.376
BXD03	0.273	0.448
BXD04	1.132	-0.073
BXD05	0.766	0.84
BXD06	0.774	0.109
BXD07	0.66	0.339
BXD08	0.353	0.494
BXD09	0.443	-0.041
CAST	0.739	0.365
CCcont	-0.587	-0.229
DS01	0.0	0.648
DS02	0.057	-0.613
DS04	0.586	1.45
DS0c	0.251	1.026
GP01	-3.176	-2.127
GP02	-1.929	-2.085
GP0c	-3.762	-2.068
NOD	1.593	0.835
NZO	-0.27	0.396
PWK	0.043	0.523
H37Rv_KO_CtpC	-1.923	-0.031
H37Rv_KO_CtpD	0.579	-0.037
H37Rv_KO_Rv1272	0.946	-0.452
H37Rv_KO_SugABC	-0.053	-1.576
H37Rv_KO_MbtN	-2.132	-0.04
Trans05	0.629	0.717
macrophage_unactivated	-1.326	0.035
IL1	0.742	-0.753
Rapamycin	-0.175	-0.74
Tcell	0.502	-0.658
GMCSF	-0.422	0.227
IFNab	-1.956	-0.571
IFNg	-0.521	-0.54
IFNg_GMCSF1	-0.666	0.104
Rv1432_day32	0.314	-0.442
Rv1565c_day32	-0.245	1.218
secA2_input	0.618	1.902
delta_Rv3594	0.477	-1.133
delta_Rv3717	-0.458	-0.669
delta_Rv3811	0.269	-0.763
delta_Rv0954	0.249	0.979
PonA1	0.407	-0.08
EccD1_KO	0.599	0.118
EspI_KO	0.519	0.491
PE35_KO	0.318	1.076
PPE68_KO	0.202	1.043
glycerol2	0.207	-0.154
lignocerate	0.81	0.677
oleate	-0.362	0.0
phosphatidylcholine	0.861	0.497
acetate	-0.18	0.851
glucAc	0.439	0.662
Rv0950ko	-0.443	-0.458
Rv1096ko	-0.98	-0.404
Rv3684ko	-1.461	0.593
delta_otsA_trehalose	-0.364	1.161