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 Rv2310/-

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

	Rv3188/-	Rv2310/-
Fe_supp_jason_reseq	0.395	2.313
low_pH_jason_reseq	0.611	0.095
NO_jason_reseq	-0.139	-1.139
B6_jason_reseq	0.151	1.542
MHCII_jason_reseq	1.439	-0.977
Isoniazid02	-0.134	-0.311
Rifampicin4	-0.677	0.95
Ethambutol3	-0.016	-0.26
Meropenem3	-0.031	0.047
Vancomycin16	-0.393	0.846
Rv2680_day32	-0.21	-2.987
H37Rv_KO_MarP	0.12	-0.045
hypoxia_3wks	0.223	1.471
hypoxia_6wks	-0.184	0.217
glycerol	-0.518	0.686
cholesterol	0.268	-0.367
AJ	0.38	-0.946
Bibs02	-0.837	-1.025
Bibs02c	1.088	0.853
BL6	0.917	1.423
BL6a	0.915	1.013
BXD01	0.476	1.544
BXD010	0.255	0.875
BXD011	0.443	0.293
BXD03	0.683	1.043
BXD04	1.355	0.252
BXD05	-0.33	1.683
BXD06	0.862	0.29
BXD07	0.246	2.857
BXD08	-0.415	0.0
BXD09	0.023	0.323
CAST	-0.47	-0.153
CCcont	0.93	1.673
DS01	1.324	-0.551
DS02	0.945	0.663
DS04	0.687	-0.413
DS0c	0.52	-0.834
GP01	-0.427	-1.931
GP02	-1.837	-1.627
GP0c	-0.033	-1.601
NOD	2.211	-0.15
NZO	-2.208	-2.922
PWK	-0.924	-2.042
H37Rv_KO_CtpC	0.515	0.052
H37Rv_KO_CtpD	1.259	2.596
H37Rv_KO_Rv1272	-0.288	-0.999
H37Rv_KO_SugABC	0.608	-0.8
H37Rv_KO_MbtN	0.87	0.111
Trans05	0.59	0.602
macrophage_unactivated	2.058	0.3
IL1	0.332	1.056
Rapamycin	0.055	1.093
Tcell	-0.27	0.196
GMCSF	-0.615	0.063
IFNab	-0.426	1.103
IFNg	-1.264	1.876
IFNg_GMCSF1	-0.352	0.333
Rv1432_day32	-0.961	1.203
Rv1565c_day32	-0.264	0.0
secA2_input	0.141	0.916
delta_Rv3594	-0.271	0.104
delta_Rv3717	-0.035	-0.253
delta_Rv3811	-0.87	-4.06
delta_Rv0954	-0.283	-0.668
PonA1	-1.929	-2.198
EccD1_KO	1.687	1.95
EspI_KO	0.074	-0.071
PE35_KO	1.444	3.515
PPE68_KO	1.901	1.897
glycerol2	0.06	1.208
lignocerate	0.789	0.522
oleate	0.024	0.547
phosphatidylcholine	0.584	1.048
acetate	0.141	-0.213
glucAc	1.043	-0.695
Rv0950ko	-0.727	0.582
Rv1096ko	0.555	1.674
Rv3684ko	0.082	2.135
delta_otsA_trehalose	-1.196	-0.585