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 Rv3770c/-:

update plot	correlation	link to info on gene
Rv0445c/sigK	(cc=0.536)	info on Rv0445c/sigK
Rv0724A/-	(cc=0.5167)	info on Rv0724A/-
Rv2636/-	(cc=0.5039)	info on Rv2636/-
Rv3414c/sigD	(cc=0.4922)	info on Rv3414c/sigD
Rv0621/-	(cc=0.4794)	info on Rv0621/-
Rv0517/-	(cc=0.4636)	info on Rv0517/-
Rv2642/-	(cc=0.4552)	info on Rv2642/-
Rv1148c/-	(cc=0.4534)	info on Rv1148c/-
Rv1118c/-	(cc=0.4477)	info on Rv1118c/-
Rv0439c/-	(cc=0.4434)	info on Rv0439c/-

Correlation of Rv3770c/- with Rv0445c/sigK

Normalized LFCs for Rv3770c/-:
(description and provenance of datasets)

	Rv3770c/-	Rv0445c/sigK
Fe_supp_jason_reseq	0.489	0.35
low_pH_jason_reseq	-0.835	-0.907
NO_jason_reseq	-0.866	0.032
B6_jason_reseq	0.151	0.782
MHCII_jason_reseq	1.268	1.165
Isoniazid02	-0.025	-0.381
Rifampicin4	-0.514	-0.211
Ethambutol3	-0.744	-0.306
Meropenem3	-0.782	-0.546
Vancomycin16	0.027	-0.639
Rv2680_day32	0.147	-0.195
H37Rv_KO_MarP	0.063	-0.113
hypoxia_3wks	0.247	0.323
hypoxia_6wks	0.063	-0.161
glycerol	0.236	1.213
cholesterol	0.088	0.305
AJ	-0.176	0.195
Bibs02	0.609	-0.085
Bibs02c	0.67	0.244
BL6	-1.019	0.105
BL6a	0.557	0.106
BXD01	-0.429	-0.06
BXD010	-0.024	0.66
BXD011	-0.017	0.08
BXD03	-0.247	-0.688
BXD04	-0.563	0.186
BXD05	-0.289	0.364
BXD06	-0.075	0.068
BXD07	-0.004	0.166
BXD08	-0.131	0.124
BXD09	-0.305	-0.104
CAST	-0.364	0.43
CCcont	-0.503	0.279
DS01	0.501	0.289
DS02	0.386	0.647
DS04	0.148	0.388
DS0c	0.715	0.52
GP01	-0.388	-2.008
GP02	-1.376	-1.771
GP0c	-0.356	-0.613
NOD	-0.078	0.908
NZO	-0.038	-0.127
PWK	-0.377	-0.105
H37Rv_KO_CtpC	-0.044	1.693
H37Rv_KO_CtpD	-0.196	-0.209
H37Rv_KO_Rv1272	-0.416	-0.109
H37Rv_KO_SugABC	-0.367	0.458
H37Rv_KO_MbtN	-0.084	-0.657
Trans05	0.441	0.32
macrophage_unactivated	-0.42	0.161
IL1	-0.394	0.255
Rapamycin	0.101	0.47
Tcell	0.0	-0.134
GMCSF	-0.269	0.0
IFNab	0.0	0.33
IFNg	0.233	0.107
IFNg_GMCSF1	0.104	0.126
Rv1432_day32	1.038	0.722
Rv1565c_day32	-0.321	-0.605
secA2_input	0.756	0.257
delta_Rv3594	-0.035	0.038
delta_Rv3717	0.049	0.115
delta_Rv3811	0.705	0.57
delta_Rv0954	0.715	0.483
PonA1	0.716	0.309
EccD1_KO	0.263	-0.174
EspI_KO	0.502	0.359
PE35_KO	0.038	-0.268
PPE68_KO	-0.013	-0.358
glycerol2	0.562	0.971
lignocerate	0.503	1.269
oleate	0.24	0.587
phosphatidylcholine	0.363	1.158
acetate	-0.555	0.864
glucAc	-0.27	0.42
Rv0950ko	0.314	0.522
Rv1096ko	0.133	0.956
Rv3684ko	0.409	0.734
delta_otsA_trehalose	1.271	1.013