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 Rv2929/-:

update plot	correlation	link to info on gene
Rv3429/PPE59	(cc=0.7601)	info on Rv3429/PPE59
Rv3142c/-	(cc=0.6497)	info on Rv3142c/-
Rv1059/-	(cc=0.6291)	info on Rv1059/-
Rv1583c/-	(cc=0.6268)	info on Rv1583c/-
Rv3378c/-	(cc=0.6187)	info on Rv3378c/-
Rv1616/-	(cc=0.6132)	info on Rv1616/-
Rv3383c/idsB	(cc=0.6119)	info on Rv3383c/idsB
Rv1490/-	(cc=0.6051)	info on Rv1490/-
Rv2430c/PPE41	(cc=0.6021)	info on Rv2430c/PPE41
Rv0822c/-	(cc=0.5942)	info on Rv0822c/-

Correlation of Rv2929/- with Rv1490/-

Normalized LFCs for Rv2929/-:
(description and provenance of datasets)

	Rv2929/-	Rv1490/-
Fe_supp_jason_reseq	-0.775	-0.101
low_pH_jason_reseq	0.059	-0.683
NO_jason_reseq	1.113	0.465
B6_jason_reseq	-2.004	-1.181
MHCII_jason_reseq	-2.323	-1.175
Isoniazid02	1.192	-0.084
Rifampicin4	0.054	0.149
Ethambutol3	1.395	0.996
Meropenem3	0.954	0.393
Vancomycin16	0.355	0.289
Rv2680_day32	-2.504	-0.698
H37Rv_KO_MarP	-0.373	0.395
hypoxia_3wks	0.072	-0.315
hypoxia_6wks	0.013	0.585
glycerol	-1.194	-0.481
cholesterol	0.171	0.473
AJ	0.598	1.42
Bibs02	-1.952	-0.04
Bibs02c	0.485	-0.045
BL6	0.745	0.0
BL6a	1.333	0.617
BXD01	1.192	-0.057
BXD010	1.561	0.738
BXD011	1.183	1.002
BXD03	1.942	0.111
BXD04	0.985	1.057
BXD05	1.564	0.561
BXD06	1.66	0.649
BXD07	1.048	0.496
BXD08	0.596	0.732
BXD09	1.566	0.843
CAST	0.754	0.681
CCcont	0.525	0.465
DS01	0.417	0.286
DS02	0.225	0.091
DS04	0.587	0.541
DS0c	0.839	-0.295
GP01	1.223	0.426
GP02	0.686	-0.585
GP0c	0.503	0.342
NOD	1.08	2.807
NZO	0.783	0.773
PWK	0.261	0.899
H37Rv_KO_CtpC	1.8	-0.071
H37Rv_KO_CtpD	2.176	1.229
H37Rv_KO_Rv1272	1.204	1.771
H37Rv_KO_SugABC	1.845	1.218
H37Rv_KO_MbtN	-0.188	0.851
Trans05	1.382	1.129
macrophage_unactivated	0.54	-0.066
IL1	0.638	0.469
Rapamycin	-0.405	-0.402
Tcell	0.394	-0.068
GMCSF	-0.731	-0.533
IFNab	-0.417	-0.538
IFNg	0.12	-0.056
IFNg_GMCSF1	0.0	-0.484
Rv1432_day32	0.314	0.033
Rv1565c_day32	-1.14	-0.269
secA2_input	-0.589	-0.823
delta_Rv3594	-1.502	0.194
delta_Rv3717	-0.599	0.108
delta_Rv3811	-0.565	0.391
delta_Rv0954	-0.432	0.585
PonA1	-0.829	-0.339
EccD1_KO	-0.053	-0.155
EspI_KO	0.704	-0.205
PE35_KO	0.277	0.198
PPE68_KO	0.0	0.691
glycerol2	0.06	0.156
lignocerate	0.2	0.462
oleate	0.149	-0.457
phosphatidylcholine	0.37	0.466
acetate	1.199	0.397
glucAc	-0.133	0.585
Rv0950ko	0.594	0.066
Rv1096ko	-1.224	-0.875
Rv3684ko	-0.619	-0.694
delta_otsA_trehalose	-0.459	-0.9