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 Rv1982c/vapC36:

update plot	correlation	link to info on gene
Rv3225c/-	(cc=0.4366)	info on Rv3225c/-
Rv1303/-	(cc=0.3994)	info on Rv1303/-
Rv1145/mmpL13a	(cc=0.3872)	info on Rv1145/mmpL13a
Rv3238c/-	(cc=0.3733)	info on Rv3238c/-
Rv2616/-	(cc=0.3697)	info on Rv2616/-
Rv1582c/-	(cc=0.3562)	info on Rv1582c/-
Rv0646c/lipG	(cc=0.3512)	info on Rv0646c/lipG
Rv2315c/-	(cc=0.3501)	info on Rv2315c/-
Rv3695/-	(cc=0.3483)	info on Rv3695/-
Rv1861/-	(cc=0.3374)	info on Rv1861/-

Correlation of Rv1982c/vapC36 with Rv3238c/-

Normalized LFCs for Rv1982c/vapC36:
(description and provenance of datasets)

	Rv1982c/vapC36	Rv3238c/-
Fe_supp_jason_reseq	0.532	-0.284
low_pH_jason_reseq	-1.845	-1.181
NO_jason_reseq	-0.236	-0.412
B6_jason_reseq	0.054	-0.232
MHCII_jason_reseq	-0.195	0.04
Isoniazid02	0.017	0.583
Rifampicin4	-0.701	0.412
Ethambutol3	1.301	1.198
Meropenem3	0.137	0.873
Vancomycin16	-0.244	0.09
Rv2680_day32	-0.5	-0.093
H37Rv_KO_MarP	0.277	0.426
hypoxia_3wks	-0.179	-0.227
hypoxia_6wks	0.104	0.019
glycerol	-0.809	-0.834
cholesterol	-0.876	-0.074
AJ	0.724	0.282
Bibs02	-0.151	-0.57
Bibs02c	-0.409	0.441
BL6	0.369	-0.079
BL6a	-0.181	0.184
BXD01	-0.455	0.159
BXD010	-2.46	-0.315
BXD011	-0.817	0.0
BXD03	-0.378	0.249
BXD04	-0.129	0.702
BXD05	-0.065	-0.225
BXD06	0.087	0.249
BXD07	0.115	0.174
BXD08	-0.564	-0.2
BXD09	0.3	-0.041
CAST	0.531	0.082
CCcont	-0.365	0.031
DS01	-0.086	0.14
DS02	-0.934	0.307
DS04	0.427	0.72
DS0c	0.627	0.399
GP01	0.129	0.234
GP02	0.883	0.51
GP0c	0.319	-0.267
NOD	0.587	0.519
NZO	-0.568	-0.202
PWK	0.335	0.59
H37Rv_KO_CtpC	1.147	0.781
H37Rv_KO_CtpD	-0.421	-0.056
H37Rv_KO_Rv1272	-0.366	0.424
H37Rv_KO_SugABC	0.706	0.385
H37Rv_KO_MbtN	0.541	0.479
Trans05	-0.339	0.706
macrophage_unactivated	-0.243	0.259
IL1	0.658	0.033
Rapamycin	-0.537	0.0
Tcell	-0.655	0.055
GMCSF	0.111	0.576
IFNab	0.314	0.148
IFNg	-0.024	0.807
IFNg_GMCSF1	-0.028	0.437
Rv1432_day32	-0.039	-0.137
Rv1565c_day32	0.385	-0.141
secA2_input	-1.75	-0.507
delta_Rv3594	-0.754	0.401
delta_Rv3717	-0.371	-0.059
delta_Rv3811	-0.317	-0.15
delta_Rv0954	0.14	0.243
PonA1	-0.541	-0.34
EccD1_KO	-0.286	0.316
EspI_KO	-0.402	1.212
PE35_KO	-0.461	1.03
PPE68_KO	-0.435	1.088
glycerol2	-0.754	0.502
lignocerate	-0.764	0.514
oleate	-0.362	0.625
phosphatidylcholine	-0.892	0.501
acetate	0.565	0.105
glucAc	-0.602	0.016
Rv0950ko	-0.443	0.289
Rv1096ko	-0.214	-0.166
Rv3684ko	-0.052	0.727
delta_otsA_trehalose	-0.313	-0.38