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 Rv0517/-:

update plot	correlation	link to info on gene
Rv3770c/-	(cc=0.4636)	info on Rv3770c/-
Rv3094c/-	(cc=0.4629)	info on Rv3094c/-
Rv1143/mcr	(cc=0.4594)	info on Rv1143/mcr
Rv2675c/-	(cc=0.4577)	info on Rv2675c/-
Rv0265c/-	(cc=0.4426)	info on Rv0265c/-
Rv2542/-	(cc=0.4411)	info on Rv2542/-
Rv2313c/-	(cc=0.4411)	info on Rv2313c/-
Rv0490/senX3	(cc=0.4396)	info on Rv0490/senX3
Rv1997/ctpF	(cc=0.4324)	info on Rv1997/ctpF
Rv2508c/-	(cc=0.4295)	info on Rv2508c/-

Correlation of Rv0517/- with Rv3770c/-

Normalized LFCs for Rv0517/-:
(description and provenance of datasets)

	Rv0517/-	Rv3770c/-
Fe_supp_jason_reseq	-0.564	0.489
low_pH_jason_reseq	-1.084	-0.835
NO_jason_reseq	-0.263	-0.866
B6_jason_reseq	-0.347	0.151
MHCII_jason_reseq	0.223	1.268
Isoniazid02	-0.749	-0.025
Rifampicin4	-0.577	-0.514
Ethambutol3	-1.876	-0.744
Meropenem3	-0.561	-0.782
Vancomycin16	-0.623	0.027
Rv2680_day32	0.452	0.147
H37Rv_KO_MarP	0.279	0.063
hypoxia_3wks	0.494	0.247
hypoxia_6wks	0.576	0.063
glycerol	-0.511	0.236
cholesterol	0.212	0.088
AJ	-0.054	-0.176
Bibs02	0.021	0.609
Bibs02c	0.277	0.67
BL6	0.119	-1.019
BL6a	-0.014	0.557
BXD01	-0.317	-0.429
BXD010	-0.25	-0.024
BXD011	-0.329	-0.017
BXD03	0.154	-0.247
BXD04	-0.43	-0.563
BXD05	-0.165	-0.289
BXD06	-0.443	-0.075
BXD07	-0.403	-0.004
BXD08	-0.429	-0.131
BXD09	-0.213	-0.305
CAST	-0.692	-0.364
CCcont	-0.554	-0.503
DS01	0.209	0.501
DS02	0.044	0.386
DS04	0.101	0.148
DS0c	-0.016	0.715
GP01	-0.922	-0.388
GP02	-1.025	-1.376
GP0c	-0.69	-0.356
NOD	-0.275	-0.078
NZO	-0.34	-0.038
PWK	-0.827	-0.377
H37Rv_KO_CtpC	-0.345	-0.044
H37Rv_KO_CtpD	-0.219	-0.196
H37Rv_KO_Rv1272	0.38	-0.416
H37Rv_KO_SugABC	0.478	-0.367
H37Rv_KO_MbtN	-0.66	-0.084
Trans05	-0.645	0.441
macrophage_unactivated	0.161	-0.42
IL1	0.131	-0.394
Rapamycin	0.694	0.101
Tcell	-0.049	0.0
GMCSF	0.04	-0.269
IFNab	0.565	0.0
IFNg	0.099	0.233
IFNg_GMCSF1	0.069	0.104
Rv1432_day32	0.984	1.038
Rv1565c_day32	-0.553	-0.321
secA2_input	0.283	0.756
delta_Rv3594	0.106	-0.035
delta_Rv3717	-0.145	0.049
delta_Rv3811	-0.178	0.705
delta_Rv0954	0.128	0.715
PonA1	0.225	0.716
EccD1_KO	0.539	0.263
EspI_KO	-0.128	0.502
PE35_KO	-0.105	0.038
PPE68_KO	-0.355	-0.013
glycerol2	0.163	0.562
lignocerate	0.364	0.503
oleate	-0.018	0.24
phosphatidylcholine	0.543	0.363
acetate	-0.389	-0.555
glucAc	0.112	-0.27
Rv0950ko	-0.41	0.314
Rv1096ko	-0.537	0.133
Rv3684ko	-0.082	0.409
delta_otsA_trehalose	-0.331	1.271