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 Rv2957/-:

update plot	correlation	link to info on gene
Rv3125c/PPE49	(cc=0.6276)	info on Rv3125c/PPE49
Rv1498c/-	(cc=0.5722)	info on Rv1498c/-
Rv2775/-	(cc=0.5567)	info on Rv2775/-
Rv1506c/-	(cc=0.5511)	info on Rv1506c/-
Rv1503c/-	(cc=0.551)	info on Rv1503c/-
Rv2777c/-	(cc=0.5378)	info on Rv2777c/-
Rv3142c/-	(cc=0.5116)	info on Rv3142c/-
Rv2807/-	(cc=0.5105)	info on Rv2807/-
Rv2452c/-	(cc=0.5068)	info on Rv2452c/-
Rv2428/ahpC	(cc=0.5063)	info on Rv2428/ahpC

Correlation of Rv2957/- with Rv1503c/-

Normalized LFCs for Rv2957/-:
(description and provenance of datasets)

	Rv2957/-	Rv1503c/-
Fe_supp_jason_reseq	0.507	1.482
low_pH_jason_reseq	-0.46	0.079
NO_jason_reseq	-0.018	-0.042
B6_jason_reseq	0.052	-0.694
MHCII_jason_reseq	0.319	0.448
Isoniazid02	-0.784	0.047
Rifampicin4	0.417	0.049
Ethambutol3	0.316	-0.134
Meropenem3	-0.769	-0.367
Vancomycin16	-0.17	-0.188
Rv2680_day32	0.675	0.535
H37Rv_KO_MarP	0.492	-0.195
hypoxia_3wks	-0.12	0.259
hypoxia_6wks	-0.236	-0.23
glycerol	-0.018	0.307
cholesterol	-0.17	-0.247
AJ	0.171	0.255
Bibs02	-0.04	-0.356
Bibs02c	0.399	0.629
BL6	0.256	0.652
BL6a	0.131	1.025
BXD01	0.434	1.067
BXD010	0.519	0.888
BXD011	0.322	1.023
BXD03	0.536	0.733
BXD04	0.994	1.913
BXD05	0.11	0.236
BXD06	0.465	0.766
BXD07	0.422	0.875
BXD08	0.268	0.626
BXD09	0.49	1.079
CAST	0.347	0.21
CCcont	0.191	0.71
DS01	-0.123	0.758
DS02	0.221	0.343
DS04	-0.228	0.662
DS0c	0.358	0.212
GP01	0.782	0.317
GP02	0.576	1.393
GP0c	0.039	0.404
NOD	0.692	1.036
NZO	-0.402	-0.292
PWK	0.395	0.065
H37Rv_KO_CtpC	0.936	0.799
H37Rv_KO_CtpD	0.909	0.896
H37Rv_KO_Rv1272	1.143	1.364
H37Rv_KO_SugABC	0.842	1.286
H37Rv_KO_MbtN	0.76	1.394
Trans05	1.468	1.288
macrophage_unactivated	0.615	0.748
IL1	-0.329	0.0
Rapamycin	-0.307	0.261
Tcell	-0.476	0.671
GMCSF	-0.869	0.137
IFNab	-0.115	-0.254
IFNg	0.139	0.657
IFNg_GMCSF1	-0.478	-0.019
Rv1432_day32	0.01	-0.409
Rv1565c_day32	0.0	0.313
secA2_input	0.114	-0.423
delta_Rv3594	0.061	0.653
delta_Rv3717	-0.609	0.491
delta_Rv3811	0.0	0.305
delta_Rv0954	-0.561	0.093
PonA1	-0.38	-0.058
EccD1_KO	0.51	-0.408
EspI_KO	0.853	-0.314
PE35_KO	1.103	0.718
PPE68_KO	0.745	0.547
glycerol2	0.303	0.761
lignocerate	0.247	0.75
oleate	0.251	0.578
phosphatidylcholine	0.356	1.034
acetate	-0.318	0.379
glucAc	-0.209	0.358
Rv0950ko	0.666	0.739
Rv1096ko	-0.344	-0.106
Rv3684ko	0.131	0.039
delta_otsA_trehalose	-0.462	0.647