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 Rv3188/-:

update plot	correlation	link to info on gene
Rv0691c/-	(cc=0.4375)	info on Rv0691c/-
Rv2800/-	(cc=0.4268)	info on Rv2800/-
Rv2310/-	(cc=0.424)	info on Rv2310/-
Rv0892/-	(cc=0.4136)	info on Rv0892/-
Rv1566c/-	(cc=0.4062)	info on Rv1566c/-
Rv2938/drrC	(cc=0.3902)	info on Rv2938/drrC
Rv2306B/-	(cc=0.3876)	info on Rv2306B/-
Rv1585c/-	(cc=0.384)	info on Rv1585c/-
Rv0798c/cfp29	(cc=0.3831)	info on Rv0798c/cfp29
Rv2957/-	(cc=0.3756)	info on Rv2957/-

Correlation of Rv3188/- with Rv0798c/cfp29

Normalized LFCs for Rv3188/-:
(description and provenance of datasets)

	Rv3188/-	Rv0798c/cfp29
Fe_supp_jason_reseq	0.395	-1.043
low_pH_jason_reseq	0.611	1.091
NO_jason_reseq	-0.139	0.076
B6_jason_reseq	0.151	0.324
MHCII_jason_reseq	1.439	-0.12
Isoniazid02	-0.134	0.095
Rifampicin4	-0.677	0.176
Ethambutol3	-0.016	-0.17
Meropenem3	-0.031	0.053
Vancomycin16	-0.393	0.443
Rv2680_day32	-0.21	1.292
H37Rv_KO_MarP	0.12	-0.378
hypoxia_3wks	0.223	-1.551
hypoxia_6wks	-0.184	-1.416
glycerol	-0.518	-0.272
cholesterol	0.268	-0.046
AJ	0.38	-0.151
Bibs02	-0.837	1.044
Bibs02c	1.088	-0.79
BL6	0.917	0.346
BL6a	0.915	0.346
BXD01	0.476	0.984
BXD010	0.255	-0.605
BXD011	0.443	0.383
BXD03	0.683	0.272
BXD04	1.355	0.751
BXD05	-0.33	1.058
BXD06	0.862	0.233
BXD07	0.246	0.841
BXD08	-0.415	1.065
BXD09	0.023	0.853
CAST	-0.47	1.23
CCcont	0.93	1.106
DS01	1.324	0.82
DS02	0.945	-0.217
DS04	0.687	-0.732
DS0c	0.52	0.702
GP01	-0.427	-0.099
GP02	-1.837	-0.81
GP0c	-0.033	-0.551
NOD	2.211	0.88
NZO	-2.208	-1.15
PWK	-0.924	-0.337
H37Rv_KO_CtpC	0.515	0.194
H37Rv_KO_CtpD	1.259	1.96
H37Rv_KO_Rv1272	-0.288	0.284
H37Rv_KO_SugABC	0.608	-0.964
H37Rv_KO_MbtN	0.87	1.833
Trans05	0.59	1.581
macrophage_unactivated	2.058	1.016
IL1	0.332	-0.332
Rapamycin	0.055	-0.114
Tcell	-0.27	0.857
GMCSF	-0.615	-0.296
IFNab	-0.426	0.314
IFNg	-1.264	-0.984
IFNg_GMCSF1	-0.352	-0.606
Rv1432_day32	-0.961	0.936
Rv1565c_day32	-0.264	-0.381
secA2_input	0.141	-0.593
delta_Rv3594	-0.271	-0.535
delta_Rv3717	-0.035	-0.583
delta_Rv3811	-0.87	0.739
delta_Rv0954	-0.283	-0.318
PonA1	-1.929	-0.725
EccD1_KO	1.687	1.779
EspI_KO	0.074	1.791
PE35_KO	1.444	1.747
PPE68_KO	1.901	2.521
glycerol2	0.06	0.617
lignocerate	0.789	0.655
oleate	0.024	0.162
phosphatidylcholine	0.584	0.81
acetate	0.141	0.19
glucAc	1.043	0.209
Rv0950ko	-0.727	1.095
Rv1096ko	0.555	-0.181
Rv3684ko	0.082	0.547
delta_otsA_trehalose	-1.196	0.803