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 Rv1619/-:

update plot	correlation	link to info on gene
Rv2629/-	(cc=0.4767)	info on Rv2629/-
Rv1251c/-	(cc=0.4516)	info on Rv1251c/-
Rv0532/PE_PGRS6	(cc=0.4451)	info on Rv0532/PE_PGRS6
Rv1992c/ctpG	(cc=0.4375)	info on Rv1992c/ctpG
Rv0325/-	(cc=0.4338)	info on Rv0325/-
Rv3395A/-	(cc=0.4333)	info on Rv3395A/-
Rv3754/tyrA	(cc=0.4294)	info on Rv3754/tyrA
Rv3037c/-	(cc=0.4211)	info on Rv3037c/-
Rv1731/gabD2	(cc=0.419)	info on Rv1731/gabD2
Rv2769c/PE27	(cc=0.4176)	info on Rv2769c/PE27

Correlation of Rv1619/- with Rv0532/PE_PGRS6

Normalized LFCs for Rv1619/-:
(description and provenance of datasets)

	Rv1619/-	Rv0532/PE_PGRS6
Fe_supp_jason_reseq	-1.058	-0.549
low_pH_jason_reseq	-1.176	-0.708
NO_jason_reseq	-0.055	-0.029
B6_jason_reseq	0.571	-0.538
MHCII_jason_reseq	-0.899	1.151
Isoniazid02	3.339	3.355
Rifampicin4	0.341	0.988
Ethambutol3	0.392	2.926
Meropenem3	3.656	0.242
Vancomycin16	0.252	0.926
Rv2680_day32	-1.614	-0.23
H37Rv_KO_MarP	0.481	0.095
hypoxia_3wks	0.315	-0.163
hypoxia_6wks	0.165	-0.355
glycerol	0.097	0.162
cholesterol	0.26	0.145
AJ	0.217	0.165
Bibs02	0.587	0.268
Bibs02c	1.164	0.505
BL6	-0.582	-0.013
BL6a	1.231	0.234
BXD01	-0.746	0.0
BXD010	0.081	-0.478
BXD011	-0.439	-0.494
BXD03	-1.273	-0.149
BXD04	-0.062	0.225
BXD05	0.366	-0.296
BXD06	-0.161	-0.028
BXD07	-0.51	0.215
BXD08	-0.236	0.653
BXD09	-1.113	-0.138
CAST	0.284	0.095
CCcont	-0.355	0.076
DS01	0.113	0.19
DS02	-0.109	0.578
DS04	-0.583	0.578
DS0c	0.534	1.065
GP01	0.256	0.362
GP02	-0.75	-0.841
GP0c	-0.605	-0.041
NOD	-0.724	-0.583
NZO	0.386	0.514
PWK	0.0	-0.617
H37Rv_KO_CtpC	-0.598	0.352
H37Rv_KO_CtpD	-1.755	-0.654
H37Rv_KO_Rv1272	-0.25	-0.405
H37Rv_KO_SugABC	-0.388	-0.415
H37Rv_KO_MbtN	-1.102	-0.022
Trans05	0.727	0.041
macrophage_unactivated	-0.398	0.644
IL1	-0.531	0.572
Rapamycin	0.868	0.344
Tcell	-0.16	-0.349
GMCSF	-0.401	0.356
IFNab	-0.541	-0.039
IFNg	0.249	0.484
IFNg_GMCSF1	0.569	0.314
Rv1432_day32	-0.795	0.0
Rv1565c_day32	0.057	-0.422
secA2_input	-0.258	-0.474
delta_Rv3594	0.843	0.47
delta_Rv3717	0.161	0.301
delta_Rv3811	0.642	0.076
delta_Rv0954	0.39	-0.437
PonA1	0.38	0.036
EccD1_KO	0.352	-0.296
EspI_KO	-0.781	-0.593
PE35_KO	0.236	-0.233
PPE68_KO	0.0	-0.221
glycerol2	-0.188	-0.025
lignocerate	0.255	0.374
oleate	0.554	-1.087
phosphatidylcholine	0.513	0.531
acetate	-0.342	0.607
glucAc	0.895	0.769
Rv0950ko	-0.362	0.202
Rv1096ko	0.492	0.235
Rv3684ko	0.095	0.36
delta_otsA_trehalose	-0.468	-0.756