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 Rv0624/vapC30:

update plot	correlation	link to info on gene
Rv3575c/-	(cc=0.4181)	info on Rv3575c/-
Rv2527/vapC17	(cc=0.3732)	info on Rv2527/vapC17
Rv0472c/-	(cc=0.371)	info on Rv0472c/-
Rv0605/-	(cc=0.3702)	info on Rv0605/-
Rv3896c/-	(cc=0.3546)	info on Rv3896c/-
Rv0163/-	(cc=0.3524)	info on Rv0163/-
Rv0478/deoC	(cc=0.3424)	info on Rv0478/deoC
Rv1683/-	(cc=0.3418)	info on Rv1683/-
Rv2369c/-	(cc=0.3385)	info on Rv2369c/-
Rv0774c/-	(cc=0.3359)	info on Rv0774c/-

Correlation of Rv0624/vapC30 with Rv3575c/-

Normalized LFCs for Rv0624/vapC30:
(description and provenance of datasets)

	Rv0624/vapC30	Rv3575c/-
Fe_supp_jason_reseq	-0.863	0.079
low_pH_jason_reseq	1.099	-1.128
NO_jason_reseq	0.593	0.331
B6_jason_reseq	0.438	0.737
MHCII_jason_reseq	0.163	-0.495
Isoniazid02	-0.13	-0.256
Rifampicin4	-1.143	-1.053
Ethambutol3	-0.146	0.223
Meropenem3	-0.405	0.199
Vancomycin16	-0.215	-1.207
Rv2680_day32	0.603	1.286
H37Rv_KO_MarP	-0.065	0.638
hypoxia_3wks	0.343	1.695
hypoxia_6wks	0.363	0.902
glycerol	-0.353	-0.657
cholesterol	-0.605	-2.09
AJ	-0.872	-0.363
Bibs02	-0.13	-0.554
Bibs02c	-0.124	-0.209
BL6	0.007	-0.204
BL6a	0.573	-1.155
BXD01	1.535	0.688
BXD010	-0.842	-0.331
BXD011	1.966	0.305
BXD03	0.202	-0.247
BXD04	1.357	0.806
BXD05	1.316	0.008
BXD06	1.123	-0.326
BXD07	0.194	0.068
BXD08	0.762	1.018
BXD09	0.694	0.484
CAST	-1.023	-2.167
CCcont	-0.106	-1.041
DS01	0.813	-0.447
DS02	0.074	1.345
DS04	0.836	-0.278
DS0c	0.693	-0.5
GP01	-0.75	-0.123
GP02	1.584	-0.227
GP0c	0.556	-0.059
NOD	-1.653	-1.516
NZO	0.056	1.706
PWK	-0.597	-1.388
H37Rv_KO_CtpC	-0.019	-0.528
H37Rv_KO_CtpD	1.715	-0.679
H37Rv_KO_Rv1272	0.0	-0.406
H37Rv_KO_SugABC	-2.097	0.1
H37Rv_KO_MbtN	-1.213	-0.434
Trans05	0.295	0.979
macrophage_unactivated	0.89	-0.593
IL1	1.189	1.652
Rapamycin	1.648	0.758
Tcell	1.75	0.964
GMCSF	0.446	0.269
IFNab	0.112	-0.568
IFNg	0.051	3.017
IFNg_GMCSF1	0.204	2.533
Rv1432_day32	1.265	2.677
Rv1565c_day32	-0.469	-1.579
secA2_input	2.101	0.171
delta_Rv3594	0.823	0.526
delta_Rv3717	1.056	1.122
delta_Rv3811	1.041	0.772
delta_Rv0954	0.171	0.328
PonA1	-1.323	-1.287
EccD1_KO	-0.184	-0.036
EspI_KO	-0.719	0.063
PE35_KO	-0.032	0.064
PPE68_KO	-0.179	0.07
glycerol2	0.81	1.152
lignocerate	1.199	0.04
oleate	0.139	0.047
phosphatidylcholine	0.922	0.657
acetate	0.301	-0.672
glucAc	0.562	-0.536
Rv0950ko	0.88	0.691
Rv1096ko	0.712	1.445
Rv3684ko	2.613	1.67
delta_otsA_trehalose	0.227	1.192