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 Rv1506c/-

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

	Rv2957/-	Rv1506c/-
Fe_supp_jason_reseq	0.507	1.14
low_pH_jason_reseq	-0.46	-0.124
NO_jason_reseq	-0.018	-0.845
B6_jason_reseq	0.052	0.451
MHCII_jason_reseq	0.319	0.886
Isoniazid02	-0.784	-1.622
Rifampicin4	0.417	0.46
Ethambutol3	0.316	-1.024
Meropenem3	-0.769	-1.301
Vancomycin16	-0.17	-0.639
Rv2680_day32	0.675	1.024
H37Rv_KO_MarP	0.492	0.347
hypoxia_3wks	-0.12	0.203
hypoxia_6wks	-0.236	-0.727
glycerol	-0.018	0.083
cholesterol	-0.17	-0.3
AJ	0.171	0.141
Bibs02	-0.04	-1.109
Bibs02c	0.399	1.285
BL6	0.256	0.614
BL6a	0.131	0.696
BXD01	0.434	1.29
BXD010	0.519	1.138
BXD011	0.322	0.522
BXD03	0.536	0.056
BXD04	0.994	0.236
BXD05	0.11	-0.246
BXD06	0.465	0.91
BXD07	0.422	0.311
BXD08	0.268	0.564
BXD09	0.49	0.596
CAST	0.347	-0.364
CCcont	0.191	-0.273
DS01	-0.123	-0.101
DS02	0.221	-0.684
DS04	-0.228	-0.083
DS0c	0.358	-0.239
GP01	0.782	0.795
GP02	0.576	-0.444
GP0c	0.039	-0.337
NOD	0.692	-0.524
NZO	-0.402	-0.517
PWK	0.395	0.473
H37Rv_KO_CtpC	0.936	0.392
H37Rv_KO_CtpD	0.909	1.137
H37Rv_KO_Rv1272	1.143	0.946
H37Rv_KO_SugABC	0.842	1.051
H37Rv_KO_MbtN	0.76	1.546
Trans05	1.468	1.207
macrophage_unactivated	0.615	0.505
IL1	-0.329	-0.086
Rapamycin	-0.307	-0.555
Tcell	-0.476	1.14
GMCSF	-0.869	-1.222
IFNab	-0.115	-0.644
IFNg	0.139	-0.748
IFNg_GMCSF1	-0.478	-0.569
Rv1432_day32	0.01	0.379
Rv1565c_day32	0.0	-2.289
secA2_input	0.114	-0.036
delta_Rv3594	0.061	-0.603
delta_Rv3717	-0.609	0.0
delta_Rv3811	0.0	-0.132
delta_Rv0954	-0.561	-1.009
PonA1	-0.38	-1.13
EccD1_KO	0.51	0.171
EspI_KO	0.853	1.437
PE35_KO	1.103	0.893
PPE68_KO	0.745	0.246
glycerol2	0.303	-1.213
lignocerate	0.247	-1.841
oleate	0.251	-0.693
phosphatidylcholine	0.356	-0.964
acetate	-0.318	-2.806
glucAc	-0.209	-1.457
Rv0950ko	0.666	-0.106
Rv1096ko	-0.344	-0.932
Rv3684ko	0.131	-0.544
delta_otsA_trehalose	-0.462	1.496