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 Rv0893c/-:

update plot	correlation	link to info on gene
Rv1199c/-	(cc=0.5739)	info on Rv1199c/-
Rv2512c/-	(cc=0.5406)	info on Rv2512c/-
Rv0755c/PPE12	(cc=0.5152)	info on Rv0755c/PPE12
Rv1676/-	(cc=0.48)	info on Rv1676/-
Rv1260/-	(cc=0.4587)	info on Rv1260/-
Rv3115/-	(cc=0.4523)	info on Rv3115/-
Rv1597/-	(cc=0.4394)	info on Rv1597/-
Rv2176/pknL	(cc=0.4386)	info on Rv2176/pknL
Rv3679/-	(cc=0.4238)	info on Rv3679/-
Rv2432c/-	(cc=0.4196)	info on Rv2432c/-

Correlation of Rv0893c/- with Rv1597/-

Normalized LFCs for Rv0893c/-:
(description and provenance of datasets)

	Rv0893c/-	Rv1597/-
Fe_supp_jason_reseq	-1.626	0.224
low_pH_jason_reseq	0.448	0.736
NO_jason_reseq	0.953	0.394
B6_jason_reseq	-0.449	0.115
MHCII_jason_reseq	0.189	0.094
Isoniazid02	0.0	0.589
Rifampicin4	0.0	0.081
Ethambutol3	-0.281	-0.178
Meropenem3	-0.435	0.737
Vancomycin16	0.528	0.305
Rv2680_day32	0.337	0.675
H37Rv_KO_MarP	0.26	0.817
hypoxia_3wks	0.183	0.12
hypoxia_6wks	0.691	0.14
glycerol	0.66	0.805
cholesterol	0.358	0.036
AJ	0.232	-0.328
Bibs02	2.078	1.02
Bibs02c	0.684	-0.08
BL6	0.0	1.072
BL6a	0.544	-0.491
BXD01	-0.361	0.11
BXD010	0.513	0.315
BXD011	0.315	-0.041
BXD03	0.664	0.146
BXD04	0.66	0.297
BXD05	1.397	0.05
BXD06	0.401	0.174
BXD07	0.182	0.165
BXD08	-0.431	0.391
BXD09	0.268	0.324
CAST	0.078	-0.41
CCcont	-0.053	0.467
DS01	1.947	0.626
DS02	1.613	0.258
DS04	1.192	0.887
DS0c	1.332	0.738
GP01	-0.715	0.336
GP02	-0.159	0.621
GP0c	0.694	0.551
NOD	-0.08	-1.009
NZO	0.068	-0.156
PWK	-0.216	-0.566
H37Rv_KO_CtpC	1.028	0.366
H37Rv_KO_CtpD	1.658	0.472
H37Rv_KO_Rv1272	1.093	1.026
H37Rv_KO_SugABC	0.751	-0.327
H37Rv_KO_MbtN	-0.24	0.323
Trans05	-0.363	0.36
macrophage_unactivated	-0.275	-0.704
IL1	-0.258	-0.273
Rapamycin	-0.703	-0.341
Tcell	-0.433	-0.218
GMCSF	-0.605	-0.309
IFNab	0.0	-0.614
IFNg	-0.484	-0.329
IFNg_GMCSF1	-0.88	-0.408
Rv1432_day32	0.0	0.708
Rv1565c_day32	0.234	0.655
secA2_input	-0.787	-0.985
delta_Rv3594	0.616	-0.096
delta_Rv3717	-0.185	0.403
delta_Rv3811	0.321	0.381
delta_Rv0954	-0.328	0.441
PonA1	-0.293	0.631
EccD1_KO	0.263	0.467
EspI_KO	0.117	0.1
PE35_KO	0.455	0.298
PPE68_KO	-0.272	-0.698
glycerol2	0.559	0.434
lignocerate	0.913	0.654
oleate	-0.411	-0.149
phosphatidylcholine	0.559	0.723
acetate	0.743	0.46
glucAc	0.605	0.612
Rv0950ko	-0.899	0.19
Rv1096ko	-0.633	-0.283
Rv3684ko	-1.074	-0.884
delta_otsA_trehalose	-0.491	0.585