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 Rv3511/PE_PGRS55

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

	Rv2501c/accA1	Rv3511/PE_PGRS55
Fe_supp_jason_reseq	-0.052	-0.718
low_pH_jason_reseq	-0.622	-0.269
NO_jason_reseq	0.168	-0.278
B6_jason_reseq	-1.11	-0.682
MHCII_jason_reseq	-0.323	0.111
Isoniazid02	-1.455	-1.059
Rifampicin4	1.045	0.444
Ethambutol3	-0.814	-0.565
Meropenem3	-0.801	-0.213
Vancomycin16	-0.39	-0.348
Rv2680_day32	-1.015	-0.922
H37Rv_KO_MarP	0.178	0.014
hypoxia_3wks	-0.478	-0.618
hypoxia_6wks	-0.251	-1.347
glycerol	0.256	0.686
cholesterol	0.597	0.429
AJ	0.904	0.844
Bibs02	0.58	-0.334
Bibs02c	0.202	0.685
BL6	0.651	-0.228
BL6a	1.187	0.321
BXD01	0.38	0.31
BXD010	0.928	-0.196
BXD011	0.834	-0.297
BXD03	1.409	1.067
BXD04	2.038	0.287
BXD05	1.385	0.589
BXD06	0.775	0.178
BXD07	0.256	0.41
BXD08	0.169	0.632
BXD09	1.018	0.287
CAST	-0.078	0.075
CCcont	1.107	-0.025
DS01	-0.08	-0.866
DS02	0.58	-0.112
DS04	0.843	-0.083
DS0c	-0.313	-0.484
GP01	0.182	0.579
GP02	1.155	1.313
GP0c	0.0	0.699
NOD	0.926	-0.322
NZO	0.532	1.052
PWK	0.249	0.374
H37Rv_KO_CtpC	1.309	0.561
H37Rv_KO_CtpD	1.664	0.302
H37Rv_KO_Rv1272	0.179	0.058
H37Rv_KO_SugABC	-0.751	0.649
H37Rv_KO_MbtN	-0.072	0.319
Trans05	0.166	1.249
macrophage_unactivated	0.915	0.073
IL1	0.451	-0.59
Rapamycin	0.654	-0.611
Tcell	-0.228	-0.479
GMCSF	0.911	0.544
IFNab	0.203	-0.683
IFNg	0.238	-0.497
IFNg_GMCSF1	0.0	-0.421
Rv1432_day32	1.025	1.036
Rv1565c_day32	-1.549	-0.524
secA2_input	0.831	0.446
delta_Rv3594	-0.667	-0.135
delta_Rv3717	-0.347	-0.53
delta_Rv3811	-0.354	-0.349
delta_Rv0954	-0.406	-0.808
PonA1	-0.362	0.0
EccD1_KO	-0.595	0.444
EspI_KO	-0.425	-0.225
PE35_KO	0.16	-0.63
PPE68_KO	-0.278	-0.733
glycerol2	-0.045	0.248
lignocerate	0.407	0.342
oleate	-0.138	0.166
phosphatidylcholine	0.324	0.221
acetate	0.384	-0.057
glucAc	0.267	-0.023
Rv0950ko	0.356	0.609
Rv1096ko	0.914	0.531
Rv3684ko	0.098	-0.193
delta_otsA_trehalose	0.238	-1.443