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 Rv2985/mutT1:

update plot	correlation	link to info on gene
Rv0505c/serB1	(cc=0.4991)	info on Rv0505c/serB1
Rv1059/-	(cc=0.4928)	info on Rv1059/-
Rv1752/-	(cc=0.478)	info on Rv1752/-
Rv1505c/-	(cc=0.4747)	info on Rv1505c/-
Rv1806/PE20	(cc=0.4625)	info on Rv1806/PE20
Rv2160c/-	(cc=0.46)	info on Rv2160c/-
Rv1422/-	(cc=0.4477)	info on Rv1422/-
Rv2650c/-	(cc=0.4405)	info on Rv2650c/-
Rv1239c/corA	(cc=0.4376)	info on Rv1239c/corA
Rv2134c/-	(cc=0.4372)	info on Rv2134c/-

Correlation of Rv2985/mutT1 with Rv1752/-

Normalized LFCs for Rv2985/mutT1:
(description and provenance of datasets)

	Rv2985/mutT1	Rv1752/-
Fe_supp_jason_reseq	0.066	0.898
low_pH_jason_reseq	0.765	-0.161
NO_jason_reseq	0.221	-0.764
B6_jason_reseq	-1.397	-0.729
MHCII_jason_reseq	-1.508	-0.549
Isoniazid02	0.876	-0.434
Rifampicin4	-0.29	0.555
Ethambutol3	0.122	1.171
Meropenem3	-0.34	0.194
Vancomycin16	-0.069	0.0
Rv2680_day32	-0.83	-2.199
H37Rv_KO_MarP	0.419	0.524
hypoxia_3wks	0.327	2.444
hypoxia_6wks	0.282	2.717
glycerol	0.784	1.779
cholesterol	-0.773	0.643
AJ	-0.541	1.076
Bibs02	-0.368	0.404
Bibs02c	0.444	-1.94
BL6	0.939	1.559
BL6a	0.907	2.314
BXD01	-0.143	3.174
BXD010	0.749	1.471
BXD011	0.583	2.332
BXD03	0.597	2.639
BXD04	0.34	3.421
BXD05	0.639	3.019
BXD06	0.677	3.229
BXD07	-0.074	2.882
BXD08	1.096	2.391
BXD09	0.356	2.702
CAST	0.853	0.779
CCcont	0.317	1.774
DS01	0.648	-1.437
DS02	-0.978	-0.989
DS04	-1.211	-0.544
DS0c	-0.116	0.368
GP01	0.996	2.24
GP02	0.511	3.888
GP0c	1.231	2.7
NOD	0.0	-0.142
NZO	0.701	1.621
PWK	0.539	0.117
H37Rv_KO_CtpC	0.85	2.829
H37Rv_KO_CtpD	1.239	1.947
H37Rv_KO_Rv1272	0.669	1.77
H37Rv_KO_SugABC	0.623	2.44
H37Rv_KO_MbtN	-0.31	1.34
Trans05	0.131	-0.315
macrophage_unactivated	-0.303	1.073
IL1	0.641	0.234
Rapamycin	0.601	1.197
Tcell	-0.153	2.587
GMCSF	-0.671	0.504
IFNab	-0.142	-0.577
IFNg	-0.393	-0.796
IFNg_GMCSF1	-0.625	-0.346
Rv1432_day32	-0.428	0.18
Rv1565c_day32	-0.13	-1.777
secA2_input	-1.016	0.44
delta_Rv3594	1.366	0.646
delta_Rv3717	0.337	-0.608
delta_Rv3811	0.128	-0.802
delta_Rv0954	1.154	1.056
PonA1	0.57	-0.6
EccD1_KO	0.204	0.842
EspI_KO	0.667	0.625
PE35_KO	0.123	1.808
PPE68_KO	-0.208	1.414
glycerol2	-0.069	-0.336
lignocerate	-1.61	-1.251
oleate	-0.216	0.043
phosphatidylcholine	-1.541	-0.319
acetate	0.155	-2.123
glucAc	-0.847	-1.959
Rv0950ko	-0.16	0.142
Rv1096ko	0.449	1.131
Rv3684ko	0.0	-0.976
delta_otsA_trehalose	-0.486	-2.184