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 Rv2486/echA14:

update plot	correlation	link to info on gene
Rv2313c/-	(cc=0.4892)	info on Rv2313c/-
Rv2010/vapC15	(cc=0.4217)	info on Rv2010/vapC15
Rv0230c/php	(cc=0.4197)	info on Rv0230c/php
Rv1410c/-	(cc=0.4053)	info on Rv1410c/-
Rv2658c/-	(cc=0.4016)	info on Rv2658c/-
Rv3843c/-	(cc=0.395)	info on Rv3843c/-
Rv1730c/-	(cc=0.3948)	info on Rv1730c/-
Rv0015c/pknA	(cc=0.3946)	info on Rv0015c/pknA
Rv0194/-	(cc=0.3919)	info on Rv0194/-
Rv0160c/PE4	(cc=0.3912)	info on Rv0160c/PE4

Correlation of Rv2486/echA14 with Rv2313c/-

Normalized LFCs for Rv2486/echA14:
(description and provenance of datasets)

	Rv2486/echA14	Rv2313c/-
Fe_supp_jason_reseq	0.979	0.762
low_pH_jason_reseq	-0.525	-0.261
NO_jason_reseq	-0.105	0.113
B6_jason_reseq	1.292	1.271
MHCII_jason_reseq	0.524	1.219
Isoniazid02	-0.732	-2.559
Rifampicin4	-0.818	0.092
Ethambutol3	-0.789	-2.421
Meropenem3	-0.648	-2.41
Vancomycin16	-0.905	-1.183
Rv2680_day32	0.651	0.218
H37Rv_KO_MarP	0.26	-0.058
hypoxia_3wks	0.427	0.1
hypoxia_6wks	0.409	0.04
glycerol	0.922	0.62
cholesterol	0.184	0.683
AJ	0.424	0.188
Bibs02	0.465	-0.67
Bibs02c	0.482	0.241
BL6	-0.744	0.332
BL6a	0.343	-0.089
BXD01	0.02	-0.293
BXD010	-0.035	-0.41
BXD011	-0.443	-0.038
BXD03	-0.339	-1.03
BXD04	-0.228	-0.139
BXD05	-0.461	-0.825
BXD06	0.218	-0.264
BXD07	-0.32	-0.031
BXD08	0.122	-0.705
BXD09	-0.044	-0.118
CAST	0.035	0.148
CCcont	-0.829	-0.563
DS01	-0.32	-0.017
DS02	-0.432	0.047
DS04	-0.171	-0.384
DS0c	-0.332	0.292
GP01	0.309	-0.157
GP02	0.42	-0.841
GP0c	0.11	0.162
NOD	0.207	-0.465
NZO	0.286	0.319
PWK	-0.061	0.696
H37Rv_KO_CtpC	-0.808	0.306
H37Rv_KO_CtpD	0.374	0.314
H37Rv_KO_Rv1272	-0.417	0.341
H37Rv_KO_SugABC	0.034	0.312
H37Rv_KO_MbtN	0.175	0.225
Trans05	0.804	0.197
macrophage_unactivated	0.164	0.956
IL1	0.952	0.027
Rapamycin	0.669	0.819
Tcell	0.205	0.352
GMCSF	0.211	0.451
IFNab	0.659	0.493
IFNg	0.094	0.414
IFNg_GMCSF1	0.748	1.103
Rv1432_day32	0.0	0.129
Rv1565c_day32	-0.039	0.182
secA2_input	0.343	-0.1
delta_Rv3594	-0.093	0.457
delta_Rv3717	-1.004	0.0
delta_Rv3811	-0.711	0.4
delta_Rv0954	-0.065	0.0
PonA1	-0.899	-0.145
EccD1_KO	-0.174	0.207
EspI_KO	0.066	0.459
PE35_KO	-0.423	0.152
PPE68_KO	-0.422	0.237
glycerol2	0.329	0.563
lignocerate	0.434	0.399
oleate	0.438	0.851
phosphatidylcholine	0.385	0.662
acetate	-0.455	-0.502
glucAc	-0.189	-0.111
Rv0950ko	-0.238	0.208
Rv1096ko	-0.67	0.377
Rv3684ko	-0.465	-0.02
delta_otsA_trehalose	0.42	0.373