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 Rv3045/adhC:

update plot	correlation	link to info on gene
Rv3133c/devR	(cc=0.6328)	info on Rv3133c/devR
Rv3814c/-	(cc=0.6194)	info on Rv3814c/-
Rv3600c/-	(cc=0.5849)	info on Rv3600c/-
Rv1633/uvrB	(cc=0.5797)	info on Rv1633/uvrB
Rv3720/-	(cc=0.5746)	info on Rv3720/-
Rv2299c/htpG	(cc=0.5652)	info on Rv2299c/htpG
Rv3397c/phyA	(cc=0.5318)	info on Rv3397c/phyA
Rv0821c/phoY2	(cc=0.5312)	info on Rv0821c/phoY2
Rv0073/-	(cc=0.53)	info on Rv0073/-
Rv2179c/-	(cc=0.5232)	info on Rv2179c/-

Correlation of Rv3045/adhC with Rv0073/-

Normalized LFCs for Rv3045/adhC:
(description and provenance of datasets)

	Rv3045/adhC	Rv0073/-
Fe_supp_jason_reseq	1.118	-0.133
low_pH_jason_reseq	1.246	-0.422
NO_jason_reseq	-1.987	-0.761
B6_jason_reseq	-0.069	0.152
MHCII_jason_reseq	-0.36	-0.392
Isoniazid02	-2.177	-1.654
Rifampicin4	-0.65	-0.801
Ethambutol3	-0.829	-0.55
Meropenem3	-2.737	-1.17
Vancomycin16	-2.43	-1.141
Rv2680_day32	0.379	0.489
H37Rv_KO_MarP	0.629	0.0
hypoxia_3wks	-4.115	-0.203
hypoxia_6wks	-2.023	-0.244
glycerol	1.36	0.812
cholesterol	0.976	0.242
AJ	0.176	-0.076
Bibs02	-0.189	0.755
Bibs02c	0.844	0.915
BL6	1.377	0.766
BL6a	0.904	0.042
BXD01	1.168	0.451
BXD010	0.752	0.271
BXD011	1.184	-0.245
BXD03	1.321	0.36
BXD04	1.514	0.559
BXD05	1.554	0.599
BXD06	1.018	0.259
BXD07	1.159	0.015
BXD08	1.052	-0.198
BXD09	1.65	0.235
CAST	0.454	0.143
CCcont	1.772	-0.04
DS01	1.107	1.3
DS02	0.498	0.553
DS04	0.981	0.41
DS0c	1.07	0.903
GP01	-0.622	0.275
GP02	-0.726	0.285
GP0c	0.169	-0.336
NOD	0.652	0.395
NZO	0.259	0.306
PWK	-0.161	0.796
H37Rv_KO_CtpC	0.612	0.467
H37Rv_KO_CtpD	1.994	1.33
H37Rv_KO_Rv1272	1.344	0.816
H37Rv_KO_SugABC	1.218	-0.049
H37Rv_KO_MbtN	-0.107	-0.225
Trans05	0.361	1.018
macrophage_unactivated	2.001	0.208
IL1	-0.469	0.08
Rapamycin	0.832	0.338
Tcell	0.463	0.277
GMCSF	0.129	-0.256
IFNab	0.629	-0.187
IFNg	-0.497	-0.241
IFNg_GMCSF1	-0.079	-0.512
Rv1432_day32	-1.061	-0.489
Rv1565c_day32	0.81	-0.092
secA2_input	0.534	0.269
delta_Rv3594	0.298	-0.17
delta_Rv3717	0.279	-0.341
delta_Rv3811	0.785	-0.439
delta_Rv0954	-0.125	-0.134
PonA1	0.172	-0.008
EccD1_KO	0.217	-0.102
EspI_KO	0.704	0.268
PE35_KO	-0.242	0.257
PPE68_KO	-0.176	0.531
glycerol2	0.163	0.073
lignocerate	0.688	-0.323
oleate	-0.106	0.336
phosphatidylcholine	0.468	0.022
acetate	-0.081	-1.034
glucAc	0.496	-0.98
Rv0950ko	0.199	0.271
Rv1096ko	0.82	0.305
Rv3684ko	1.281	-0.698
delta_otsA_trehalose	-1.408	-0.232