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 Rv0892/-

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

	Rv3188/-	Rv0892/-
Fe_supp_jason_reseq	0.395	2.0
low_pH_jason_reseq	0.611	0.146
NO_jason_reseq	-0.139	0.0
B6_jason_reseq	0.151	1.447
MHCII_jason_reseq	1.439	0.126
Isoniazid02	-0.134	-0.333
Rifampicin4	-0.677	0.114
Ethambutol3	-0.016	0.0
Meropenem3	-0.031	1.435
Vancomycin16	-0.393	0.218
Rv2680_day32	-0.21	-0.406
H37Rv_KO_MarP	0.12	0.0
hypoxia_3wks	0.223	0.207
hypoxia_6wks	-0.184	-0.228
glycerol	-0.518	-0.831
cholesterol	0.268	0.035
AJ	0.38	0.0
Bibs02	-0.837	0.699
Bibs02c	1.088	1.096
BL6	0.917	0.796
BL6a	0.915	1.336
BXD01	0.476	0.408
BXD010	0.255	1.116
BXD011	0.443	0.53
BXD03	0.683	0.805
BXD04	1.355	0.554
BXD05	-0.33	0.745
BXD06	0.862	0.884
BXD07	0.246	0.881
BXD08	-0.415	0.317
BXD09	0.023	0.856
CAST	-0.47	0.592
CCcont	0.93	0.0
DS01	1.324	1.237
DS02	0.945	0.904
DS04	0.687	0.807
DS0c	0.52	0.792
GP01	-0.427	-0.559
GP02	-1.837	-0.507
GP0c	-0.033	-0.065
NOD	2.211	0.62
NZO	-2.208	-1.215
PWK	-0.924	0.226
H37Rv_KO_CtpC	0.515	0.99
H37Rv_KO_CtpD	1.259	1.402
H37Rv_KO_Rv1272	-0.288	0.539
H37Rv_KO_SugABC	0.608	1.063
H37Rv_KO_MbtN	0.87	0.14
Trans05	0.59	0.741
macrophage_unactivated	2.058	0.193
IL1	0.332	0.881
Rapamycin	0.055	0.126
Tcell	-0.27	-0.068
GMCSF	-0.615	-0.055
IFNab	-0.426	-0.063
IFNg	-1.264	0.0
IFNg_GMCSF1	-0.352	0.314
Rv1432_day32	-0.961	-0.553
Rv1565c_day32	-0.264	-0.227
secA2_input	0.141	-0.639
delta_Rv3594	-0.271	-0.05
delta_Rv3717	-0.035	-0.174
delta_Rv3811	-0.87	-0.1
delta_Rv0954	-0.283	0.238
PonA1	-1.929	0.037
EccD1_KO	1.687	0.704
EspI_KO	0.074	0.539
PE35_KO	1.444	0.837
PPE68_KO	1.901	0.442
glycerol2	0.06	-0.923
lignocerate	0.789	-0.947
oleate	0.024	-0.034
phosphatidylcholine	0.584	-0.536
acetate	0.141	-0.485
glucAc	1.043	-1.084
Rv0950ko	-0.727	0.887
Rv1096ko	0.555	0.271
Rv3684ko	0.082	0.075
delta_otsA_trehalose	-1.196	-1.314