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 Rv2501c/accA1:

update plot	correlation	link to info on gene
Rv0354c/PPE7	(cc=0.6338)	info on Rv0354c/PPE7
Rv0822c/-	(cc=0.5632)	info on Rv0822c/-
Rv1169c/lipX	(cc=0.5133)	info on Rv1169c/lipX
Rv3529c/-	(cc=0.5125)	info on Rv3529c/-
Rv2751/-	(cc=0.5102)	info on Rv2751/-
Rv2999/lppY	(cc=0.5092)	info on Rv2999/lppY
Rv2430c/PPE41	(cc=0.5055)	info on Rv2430c/PPE41
Rv3528c/-	(cc=0.4986)	info on Rv3528c/-
Rv3511/PE_PGRS55	(cc=0.4941)	info on Rv3511/PE_PGRS55
Rv2352c/PPE38	(cc=0.4934)	info on Rv2352c/PPE38

Correlation of Rv2501c/accA1 with Rv2352c/PPE38

Normalized LFCs for Rv2501c/accA1:
(description and provenance of datasets)

	Rv2501c/accA1	Rv2352c/PPE38
Fe_supp_jason_reseq	-0.052	0.35
low_pH_jason_reseq	-0.622	-1.029
NO_jason_reseq	0.168	-0.491
B6_jason_reseq	-1.11	-0.488
MHCII_jason_reseq	-0.323	-0.46
Isoniazid02	-1.455	-1.043
Rifampicin4	1.045	-0.208
Ethambutol3	-0.814	-0.882
Meropenem3	-0.801	-1.085
Vancomycin16	-0.39	-0.602
Rv2680_day32	-1.015	-0.611
H37Rv_KO_MarP	0.178	-0.629
hypoxia_3wks	-0.478	-0.06
hypoxia_6wks	-0.251	-0.56
glycerol	0.256	0.532
cholesterol	0.597	0.575
AJ	0.904	0.321
Bibs02	0.58	0.203
Bibs02c	0.202	0.297
BL6	0.651	0.173
BL6a	1.187	0.425
BXD01	0.38	0.346
BXD010	0.928	-0.031
BXD011	0.834	-0.232
BXD03	1.409	0.503
BXD04	2.038	0.661
BXD05	1.385	0.358
BXD06	0.775	0.167
BXD07	0.256	0.22
BXD08	0.169	0.298
BXD09	1.018	0.376
CAST	-0.078	0.235
CCcont	1.107	-0.032
DS01	-0.08	0.267
DS02	0.58	0.17
DS04	0.843	0.554
DS0c	-0.313	0.179
GP01	0.182	0.253
GP02	1.155	0.349
GP0c	0.0	0.348
NOD	0.926	-0.184
NZO	0.532	0.393
PWK	0.249	0.06
H37Rv_KO_CtpC	1.309	0.169
H37Rv_KO_CtpD	1.664	0.659
H37Rv_KO_Rv1272	0.179	1.248
H37Rv_KO_SugABC	-0.751	0.005
H37Rv_KO_MbtN	-0.072	0.457
Trans05	0.166	1.088
macrophage_unactivated	0.915	0.511
IL1	0.451	-0.11
Rapamycin	0.654	0.037
Tcell	-0.228	-0.495
GMCSF	0.911	0.533
IFNab	0.203	0.054
IFNg	0.238	0.088
IFNg_GMCSF1	0.0	0.364
Rv1432_day32	1.025	0.407
Rv1565c_day32	-1.549	-0.141
secA2_input	0.831	-0.626
delta_Rv3594	-0.667	0.583
delta_Rv3717	-0.347	-0.374
delta_Rv3811	-0.354	0.268
delta_Rv0954	-0.406	0.289
PonA1	-0.362	0.085
EccD1_KO	-0.595	-0.566
EspI_KO	-0.425	-0.031
PE35_KO	0.16	0.105
PPE68_KO	-0.278	0.275
glycerol2	-0.045	0.167
lignocerate	0.407	-0.169
oleate	-0.138	-0.004
phosphatidylcholine	0.324	-0.224
acetate	0.384	-0.047
glucAc	0.267	0.016
Rv0950ko	0.356	0.277
Rv1096ko	0.914	-0.012
Rv3684ko	0.098	-0.134
delta_otsA_trehalose	0.238	0.184