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 Rv2658c/-

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

	Rv2486/echA14	Rv2658c/-
Fe_supp_jason_reseq	0.979	0.387
low_pH_jason_reseq	-0.525	-0.974
NO_jason_reseq	-0.105	0.0
B6_jason_reseq	1.292	0.034
MHCII_jason_reseq	0.524	0.572
Isoniazid02	-0.732	-0.778
Rifampicin4	-0.818	0.311
Ethambutol3	-0.789	-0.143
Meropenem3	-0.648	-1.622
Vancomycin16	-0.905	-1.059
Rv2680_day32	0.651	-0.294
H37Rv_KO_MarP	0.26	0.78
hypoxia_3wks	0.427	0.279
hypoxia_6wks	0.409	-0.186
glycerol	0.922	0.265
cholesterol	0.184	0.041
AJ	0.424	-0.655
Bibs02	0.465	0.229
Bibs02c	0.482	0.391
BL6	-0.744	-0.702
BL6a	0.343	0.564
BXD01	0.02	-0.257
BXD010	-0.035	-0.135
BXD011	-0.443	-0.076
BXD03	-0.339	0.005
BXD04	-0.228	-0.339
BXD05	-0.461	0.775
BXD06	0.218	-0.034
BXD07	-0.32	0.344
BXD08	0.122	-0.109
BXD09	-0.044	0.098
CAST	0.035	0.444
CCcont	-0.829	-0.182
DS01	-0.32	0.05
DS02	-0.432	0.307
DS04	-0.171	-0.197
DS0c	-0.332	0.732
GP01	0.309	-0.697
GP02	0.42	-0.467
GP0c	0.11	-0.551
NOD	0.207	0.664
NZO	0.286	0.118
PWK	-0.061	0.448
H37Rv_KO_CtpC	-0.808	-0.272
H37Rv_KO_CtpD	0.374	0.798
H37Rv_KO_Rv1272	-0.417	0.35
H37Rv_KO_SugABC	0.034	0.476
H37Rv_KO_MbtN	0.175	0.685
Trans05	0.804	0.346
macrophage_unactivated	0.164	0.309
IL1	0.952	0.653
Rapamycin	0.669	0.715
Tcell	0.205	-0.101
GMCSF	0.211	0.512
IFNab	0.659	0.435
IFNg	0.094	0.446
IFNg_GMCSF1	0.748	0.248
Rv1432_day32	0.0	0.037
Rv1565c_day32	-0.039	0.125
secA2_input	0.343	-0.254
delta_Rv3594	-0.093	-0.052
delta_Rv3717	-1.004	-0.551
delta_Rv3811	-0.711	-0.425
delta_Rv0954	-0.065	0.133
PonA1	-0.899	-0.97
EccD1_KO	-0.174	0.089
EspI_KO	0.066	0.893
PE35_KO	-0.423	0.939
PPE68_KO	-0.422	0.189
glycerol2	0.329	-0.472
lignocerate	0.434	-0.756
oleate	0.438	0.191
phosphatidylcholine	0.385	-0.282
acetate	-0.455	-0.233
glucAc	-0.189	-0.879
Rv0950ko	-0.238	0.027
Rv1096ko	-0.67	-0.784
Rv3684ko	-0.465	-0.802
delta_otsA_trehalose	0.42	1.711