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 Rv2970A/-:

update plot	correlation	link to info on gene
Rv0478/deoC	(cc=0.5969)	info on Rv0478/deoC
Rv0262c/aac	(cc=0.5404)	info on Rv0262c/aac
Rv2456c/-	(cc=0.5304)	info on Rv2456c/-
Rv0055/rpsR1	(cc=0.5266)	info on Rv0055/rpsR1
Rv1561/vapC11	(cc=0.5237)	info on Rv1561/vapC11
Rv1870c/-	(cc=0.5228)	info on Rv1870c/-
Rv1207/folP2	(cc=0.5221)	info on Rv1207/folP2
Rv3174/-	(cc=0.5206)	info on Rv3174/-
Rv0051/-	(cc=0.5119)	info on Rv0051/-
Rv2330c/lppP	(cc=0.4927)	info on Rv2330c/lppP

Correlation of Rv2970A/- with Rv0262c/aac

Normalized LFCs for Rv2970A/-:
(description and provenance of datasets)

	Rv2970A/-	Rv0262c/aac
Fe_supp_jason_reseq	1.023	0.586
low_pH_jason_reseq	0.835	-0.368
NO_jason_reseq	-0.572	0.391
B6_jason_reseq	0.598	-0.767
MHCII_jason_reseq	-1.115	-0.603
Isoniazid02	2.002	1.157
Rifampicin4	0.409	1.205
Ethambutol3	5.696	0.879
Meropenem3	0.444	0.041
Vancomycin16	0.846	0.674
Rv2680_day32	0.715	2.426
H37Rv_KO_MarP	0.968	1.376
hypoxia_3wks	-0.778	0.044
hypoxia_6wks	0.766	0.495
glycerol	-0.389	-0.123
cholesterol	0.184	1.459
AJ	-1.704	0.089
Bibs02	-1.269	0.902
Bibs02c	0.303	-0.041
BL6	3.312	-0.58
BL6a	2.184	1.53
BXD01	2.485	0.877
BXD010	1.936	2.333
BXD011	2.424	1.184
BXD03	2.181	2.031
BXD04	1.689	0.396
BXD05	3.209	2.602
BXD06	2.483	1.524
BXD07	2.987	2.382
BXD08	1.885	1.136
BXD09	2.328	1.659
CAST	0.699	0.0
CCcont	2.221	0.623
DS01	0.527	0.578
DS02	-0.866	0.083
DS04	-1.196	1.307
DS0c	-0.735	-1.796
GP01	-1.621	-1.721
GP02	-1.116	-1.158
GP0c	-0.156	-2.018
NOD	1.051	0.129
NZO	-0.62	-1.331
PWK	0.118	0.112
H37Rv_KO_CtpC	0.293	2.607
H37Rv_KO_CtpD	0.051	0.049
H37Rv_KO_Rv1272	0.802	-1.592
H37Rv_KO_SugABC	-0.749	0.387
H37Rv_KO_MbtN	1.533	0.88
Trans05	0.0	0.853
macrophage_unactivated	1.414	0.085
IL1	1.706	0.0
Rapamycin	0.482	0.826
Tcell	0.577	-0.427
GMCSF	0.304	0.977
IFNab	1.684	1.261
IFNg	0.318	0.679
IFNg_GMCSF1	0.657	-0.113
Rv1432_day32	0.0	0.299
Rv1565c_day32	-0.599	-0.194
secA2_input	2.779	2.336
delta_Rv3594	-0.672	-0.906
delta_Rv3717	-0.248	0.05
delta_Rv3811	-0.822	0.019
delta_Rv0954	-2.417	-0.282
PonA1	0.0	-0.779
EccD1_KO	0.099	0.97
EspI_KO	-0.89	-0.271
PE35_KO	0.058	-0.403
PPE68_KO	-0.032	-0.442
glycerol2	0.835	1.424
lignocerate	2.012	1.46
oleate	0.434	0.529
phosphatidylcholine	1.303	1.13
acetate	1.652	1.493
glucAc	1.092	0.412
Rv0950ko	0.823	-0.145
Rv1096ko	-0.106	-0.193
Rv3684ko	-1.323	0.052
delta_otsA_trehalose	-1.271	-2.049