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 Rv0530/-:

update plot	correlation	link to info on gene
Rv1057/-	(cc=0.5674)	info on Rv1057/-
Rv0536/galE3	(cc=0.5137)	info on Rv0536/galE3
Rv2402/-	(cc=0.5029)	info on Rv2402/-
Rv0493c/-	(cc=0.496)	info on Rv0493c/-
Rv0113/gmhA	(cc=0.4933)	info on Rv0113/gmhA
Rv2748c/ftsK	(cc=0.4922)	info on Rv2748c/ftsK
Rv3294c/-	(cc=0.4876)	info on Rv3294c/-
Rv3786c/-	(cc=0.4871)	info on Rv3786c/-
Rv0134/ephF	(cc=0.4818)	info on Rv0134/ephF
Rv0442c/PPE10	(cc=0.4707)	info on Rv0442c/PPE10

Correlation of Rv0530/- with Rv0493c/-

Normalized LFCs for Rv0530/-:
(description and provenance of datasets)

	Rv0530/-	Rv0493c/-
Fe_supp_jason_reseq	-0.276	-0.164
low_pH_jason_reseq	-0.321	-0.937
NO_jason_reseq	0.236	-0.501
B6_jason_reseq	0.625	0.031
MHCII_jason_reseq	0.96	0.074
Isoniazid02	0.292	0.106
Rifampicin4	-0.222	-0.352
Ethambutol3	0.582	0.721
Meropenem3	0.265	0.313
Vancomycin16	-0.838	-0.135
Rv2680_day32	-0.954	-0.758
H37Rv_KO_MarP	0.12	0.677
hypoxia_3wks	-0.57	0.0
hypoxia_6wks	-0.23	0.716
glycerol	-0.044	-0.705
cholesterol	-0.614	-0.449
AJ	0.309	0.429
Bibs02	0.351	0.212
Bibs02c	0.333	0.303
BL6	-0.4	0.012
BL6a	0.042	0.009
BXD01	-0.154	-0.944
BXD010	-0.646	0.104
BXD011	-0.259	-0.272
BXD03	-0.672	-0.113
BXD04	0.031	-0.473
BXD05	-0.544	-0.359
BXD06	-0.618	-0.423
BXD07	-0.137	-0.647
BXD08	-0.277	-0.104
BXD09	-0.568	-0.124
CAST	0.864	-0.088
CCcont	-0.12	-0.591
DS01	1.025	0.455
DS02	-0.154	0.436
DS04	0.309	0.208
DS0c	0.787	0.55
GP01	0.37	-0.228
GP02	1.026	-0.253
GP0c	0.212	0.188
NOD	0.029	-0.799
NZO	0.026	0.065
PWK	0.742	0.064
H37Rv_KO_CtpC	-0.435	-0.783
H37Rv_KO_CtpD	0.327	0.293
H37Rv_KO_Rv1272	-1.102	-0.669
H37Rv_KO_SugABC	0.252	-0.515
H37Rv_KO_MbtN	0.125	-0.806
Trans05	-0.813	-0.71
macrophage_unactivated	-0.331	0.136
IL1	0.208	0.202
Rapamycin	0.675	0.577
Tcell	-0.469	0.114
GMCSF	0.364	0.393
IFNab	-0.46	0.051
IFNg	-0.059	0.604
IFNg_GMCSF1	1.345	1.282
Rv1432_day32	0.849	0.184
Rv1565c_day32	-0.518	0.118
secA2_input	0.333	0.858
delta_Rv3594	-0.393	0.54
delta_Rv3717	0.345	0.342
delta_Rv3811	-0.256	0.404
delta_Rv0954	0.224	0.444
PonA1	0.391	-0.233
EccD1_KO	-0.444	0.332
EspI_KO	-0.536	-0.288
PE35_KO	-0.099	-0.248
PPE68_KO	-0.55	-0.349
glycerol2	0.015	0.115
lignocerate	0.961	0.569
oleate	-0.472	-0.922
phosphatidylcholine	0.353	0.115
acetate	0.251	0.203
glucAc	0.367	0.385
Rv0950ko	0.244	0.181
Rv1096ko	0.29	1.218
Rv3684ko	0.39	0.115
delta_otsA_trehalose	0.888	0.533