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 Rv0073/-:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.5614)	info on Rv0160c/PE4
Rv2431c/PE25	(cc=0.5486)	info on Rv2431c/PE25
Rv2352c/PPE38	(cc=0.5416)	info on Rv2352c/PPE38
Rv3045/adhC	(cc=0.53)	info on Rv3045/adhC
Rv0456B/mazE1	(cc=0.5264)	info on Rv0456B/mazE1
Rv0197/-	(cc=0.5135)	info on Rv0197/-
Rv3404c/-	(cc=0.5038)	info on Rv3404c/-
Rv3814c/-	(cc=0.4958)	info on Rv3814c/-
Rv2957/-	(cc=0.4929)	info on Rv2957/-
Rv2472/-	(cc=0.4893)	info on Rv2472/-

Correlation of Rv0073/- with Rv0456B/mazE1

Normalized LFCs for Rv0073/-:
(description and provenance of datasets)

	Rv0073/-	Rv0456B/mazE1
Fe_supp_jason_reseq	-0.133	0.534
low_pH_jason_reseq	-0.422	-0.154
NO_jason_reseq	-0.761	0.126
B6_jason_reseq	0.152	0.382
MHCII_jason_reseq	-0.392	0.572
Isoniazid02	-1.654	-2.183
Rifampicin4	-0.801	0.471
Ethambutol3	-0.55	-1.78
Meropenem3	-1.17	-1.887
Vancomycin16	-1.141	-0.796
Rv2680_day32	0.489	0.44
H37Rv_KO_MarP	0.0	-0.282
hypoxia_3wks	-0.203	0.0
hypoxia_6wks	-0.244	-0.186
glycerol	0.812	1.014
cholesterol	0.242	0.351
AJ	-0.076	-0.773
Bibs02	0.755	0.91
Bibs02c	0.915	0.929
BL6	0.766	0.719
BL6a	0.042	1.343
BXD01	0.451	0.413
BXD010	0.271	0.671
BXD011	-0.245	0.891
BXD03	0.36	-0.017
BXD04	0.559	0.208
BXD05	0.599	1.222
BXD06	0.259	0.799
BXD07	0.015	0.53
BXD08	-0.198	0.189
BXD09	0.235	0.657
CAST	0.143	1.068
CCcont	-0.04	0.52
DS01	1.3	0.664
DS02	0.553	0.912
DS04	0.41	0.899
DS0c	0.903	1.276
GP01	0.275	0.382
GP02	0.285	0.811
GP0c	-0.336	0.062
NOD	0.395	0.962
NZO	0.306	0.152
PWK	0.796	-0.213
H37Rv_KO_CtpC	0.467	0.298
H37Rv_KO_CtpD	1.33	0.479
H37Rv_KO_Rv1272	0.816	0.329
H37Rv_KO_SugABC	-0.049	0.156
H37Rv_KO_MbtN	-0.225	0.13
Trans05	1.018	0.621
macrophage_unactivated	0.208	0.59
IL1	0.08	0.688
Rapamycin	0.338	1.154
Tcell	0.277	0.218
GMCSF	-0.256	-0.378
IFNab	-0.187	0.438
IFNg	-0.241	0.096
IFNg_GMCSF1	-0.512	1.477
Rv1432_day32	-0.489	0.391
Rv1565c_day32	-0.092	1.046
secA2_input	0.269	-0.139
delta_Rv3594	-0.17	-0.473
delta_Rv3717	-0.341	-0.406
delta_Rv3811	-0.439	-0.352
delta_Rv0954	-0.134	-0.279
PonA1	-0.008	0.211
EccD1_KO	-0.102	-0.816
EspI_KO	0.268	-0.57
PE35_KO	0.257	-0.193
PPE68_KO	0.531	-0.576
glycerol2	0.073	0.154
lignocerate	-0.323	0.1
oleate	0.336	-0.16
phosphatidylcholine	0.022	0.123
acetate	-1.034	-0.332
glucAc	-0.98	0.019
Rv0950ko	0.271	0.419
Rv1096ko	0.305	-0.332
Rv3684ko	-0.698	0.495
delta_otsA_trehalose	-0.232	-0.366