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 Rv3668c/-:

update plot	correlation	link to info on gene
Rv0007/-	(cc=0.5181)	info on Rv0007/-
Rv3086/adhD	(cc=0.499)	info on Rv3086/adhD
Rv0314c/-	(cc=0.4744)	info on Rv0314c/-
Rv2594c/ruvC	(cc=0.4737)	info on Rv2594c/ruvC
Rv0995/rimJ	(cc=0.4721)	info on Rv0995/rimJ
Rv2171/lppM	(cc=0.4678)	info on Rv2171/lppM
Rv0656c/vapC6	(cc=0.4526)	info on Rv0656c/vapC6
Rv0132c/fgd2	(cc=0.4523)	info on Rv0132c/fgd2
Rv0994/moeA1	(cc=0.4491)	info on Rv0994/moeA1
Rv0361/-	(cc=0.4425)	info on Rv0361/-

Correlation of Rv3668c/- with Rv2594c/ruvC

Normalized LFCs for Rv3668c/-:
(description and provenance of datasets)

	Rv3668c/-	Rv2594c/ruvC
Fe_supp_jason_reseq	-0.612	0.218
low_pH_jason_reseq	-1.071	0.0
NO_jason_reseq	0.037	0.0
B6_jason_reseq	-0.297	0.0
MHCII_jason_reseq	-0.082	0.0
Isoniazid02	-0.167	-0.351
Rifampicin4	-2.767	-1.026
Ethambutol3	-0.862	-0.461
Meropenem3	-1.266	-0.289
Vancomycin16	-1.22	-1.005
Rv2680_day32	1.287	0.0
H37Rv_KO_MarP	0.454	0.0
hypoxia_3wks	0.0	0.0
hypoxia_6wks	-0.666	0.0
glycerol	-0.149	0.0
cholesterol	1.1	0.0
AJ	0.324	0.0
Bibs02	-0.31	0.0
Bibs02c	0.199	0.0
BL6	0.603	0.0
BL6a	0.373	0.0
BXD01	-0.177	0.0
BXD010	-0.516	0.0
BXD011	-0.745	0.0
BXD03	-0.678	0.0
BXD04	-0.159	0.0
BXD05	-0.408	0.0
BXD06	-0.26	0.0
BXD07	-0.102	0.0
BXD08	-0.621	0.0
BXD09	-0.657	0.0
CAST	0.158	0.0
CCcont	0.093	0.733
DS01	-0.342	0.0
DS02	0.12	0.0
DS04	0.067	0.0
DS0c	0.641	0.0
GP01	-1.222	0.0
GP02	0.382	0.0
GP0c	-0.177	0.0
NOD	-0.049	0.0
NZO	-0.043	0.0
PWK	-0.467	0.0
H37Rv_KO_CtpC	-0.93	0.0
H37Rv_KO_CtpD	0.809	0.0
H37Rv_KO_Rv1272	-0.336	0.0
H37Rv_KO_SugABC	-0.127	0.0
H37Rv_KO_MbtN	-1.826	0.0
Trans05	-1.073	0.0
macrophage_unactivated	-0.262	0.0
IL1	0.119	0.0
Rapamycin	0.04	0.0
Tcell	-0.179	0.0
GMCSF	0.309	0.0
IFNab	0.747	0.0
IFNg	-0.184	0.0
IFNg_GMCSF1	0.443	0.0
Rv1432_day32	-0.222	0.0
Rv1565c_day32	1.374	0.0
secA2_input	-0.047	0.412
delta_Rv3594	1.332	0.211
delta_Rv3717	1.016	0.0
delta_Rv3811	0.965	0.0
delta_Rv0954	1.302	0.99
PonA1	-0.223	0.304
EccD1_KO	1.371	0.0
EspI_KO	-0.257	-0.394
PE35_KO	0.248	0.703
PPE68_KO	0.387	0.0
glycerol2	0.972	0.0
lignocerate	0.519	0.0
oleate	-0.601	0.0
phosphatidylcholine	0.224	0.0
acetate	0.091	0.63
glucAc	0.662	0.0
Rv0950ko	0.277	0.38
Rv1096ko	1.179	0.38
Rv3684ko	1.009	0.789
delta_otsA_trehalose	0.725	1.482