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 Rv0160c/PE4

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

	Rv2486/echA14	Rv0160c/PE4
Fe_supp_jason_reseq	0.979	0.011
low_pH_jason_reseq	-0.525	-0.07
NO_jason_reseq	-0.105	-0.11
B6_jason_reseq	1.292	0.416
MHCII_jason_reseq	0.524	0.302
Isoniazid02	-0.732	-1.8
Rifampicin4	-0.818	0.208
Ethambutol3	-0.789	-0.931
Meropenem3	-0.648	-1.482
Vancomycin16	-0.905	-0.836
Rv2680_day32	0.651	-0.088
H37Rv_KO_MarP	0.26	0.748
hypoxia_3wks	0.427	-0.191
hypoxia_6wks	0.409	-0.175
glycerol	0.922	0.471
cholesterol	0.184	0.477
AJ	0.424	0.062
Bibs02	0.465	0.886
Bibs02c	0.482	0.584
BL6	-0.744	0.188
BL6a	0.343	0.375
BXD01	0.02	-0.029
BXD010	-0.035	-0.023
BXD011	-0.443	0.241
BXD03	-0.339	0.15
BXD04	-0.228	0.354
BXD05	-0.461	0.048
BXD06	0.218	0.316
BXD07	-0.32	0.182
BXD08	0.122	0.338
BXD09	-0.044	0.032
CAST	0.035	0.427
CCcont	-0.829	-0.148
DS01	-0.32	0.281
DS02	-0.432	0.584
DS04	-0.171	0.126
DS0c	-0.332	-0.141
GP01	0.309	0.358
GP02	0.42	1.382
GP0c	0.11	-0.229
NOD	0.207	0.364
NZO	0.286	0.887
PWK	-0.061	0.193
H37Rv_KO_CtpC	-0.808	0.447
H37Rv_KO_CtpD	0.374	1.091
H37Rv_KO_Rv1272	-0.417	1.015
H37Rv_KO_SugABC	0.034	0.612
H37Rv_KO_MbtN	0.175	0.485
Trans05	0.804	0.807
macrophage_unactivated	0.164	-0.354
IL1	0.952	0.098
Rapamycin	0.669	0.239
Tcell	0.205	-0.248
GMCSF	0.211	-0.09
IFNab	0.659	0.039
IFNg	0.094	0.294
IFNg_GMCSF1	0.748	0.085
Rv1432_day32	0.0	0.339
Rv1565c_day32	-0.039	0.458
secA2_input	0.343	-0.333
delta_Rv3594	-0.093	-0.099
delta_Rv3717	-1.004	-0.239
delta_Rv3811	-0.711	-0.223
delta_Rv0954	-0.065	0.358
PonA1	-0.899	0.126
EccD1_KO	-0.174	-0.444
EspI_KO	0.066	0.074
PE35_KO	-0.423	-0.446
PPE68_KO	-0.422	-0.221
glycerol2	0.329	0.276
lignocerate	0.434	0.284
oleate	0.438	0.216
phosphatidylcholine	0.385	0.387
acetate	-0.455	0.083
glucAc	-0.189	0.264
Rv0950ko	-0.238	0.479
Rv1096ko	-0.67	-0.13
Rv3684ko	-0.465	0.134
delta_otsA_trehalose	0.42	0.026