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 Rv0160c/PE4

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

	Rv0073/-	Rv0160c/PE4
Fe_supp_jason_reseq	-0.133	0.011
low_pH_jason_reseq	-0.422	-0.07
NO_jason_reseq	-0.761	-0.11
B6_jason_reseq	0.152	0.416
MHCII_jason_reseq	-0.392	0.302
Isoniazid02	-1.654	-1.8
Rifampicin4	-0.801	0.208
Ethambutol3	-0.55	-0.931
Meropenem3	-1.17	-1.482
Vancomycin16	-1.141	-0.836
Rv2680_day32	0.489	-0.088
H37Rv_KO_MarP	0.0	0.748
hypoxia_3wks	-0.203	-0.191
hypoxia_6wks	-0.244	-0.175
glycerol	0.812	0.471
cholesterol	0.242	0.477
AJ	-0.076	0.062
Bibs02	0.755	0.886
Bibs02c	0.915	0.584
BL6	0.766	0.188
BL6a	0.042	0.375
BXD01	0.451	-0.029
BXD010	0.271	-0.023
BXD011	-0.245	0.241
BXD03	0.36	0.15
BXD04	0.559	0.354
BXD05	0.599	0.048
BXD06	0.259	0.316
BXD07	0.015	0.182
BXD08	-0.198	0.338
BXD09	0.235	0.032
CAST	0.143	0.427
CCcont	-0.04	-0.148
DS01	1.3	0.281
DS02	0.553	0.584
DS04	0.41	0.126
DS0c	0.903	-0.141
GP01	0.275	0.358
GP02	0.285	1.382
GP0c	-0.336	-0.229
NOD	0.395	0.364
NZO	0.306	0.887
PWK	0.796	0.193
H37Rv_KO_CtpC	0.467	0.447
H37Rv_KO_CtpD	1.33	1.091
H37Rv_KO_Rv1272	0.816	1.015
H37Rv_KO_SugABC	-0.049	0.612
H37Rv_KO_MbtN	-0.225	0.485
Trans05	1.018	0.807
macrophage_unactivated	0.208	-0.354
IL1	0.08	0.098
Rapamycin	0.338	0.239
Tcell	0.277	-0.248
GMCSF	-0.256	-0.09
IFNab	-0.187	0.039
IFNg	-0.241	0.294
IFNg_GMCSF1	-0.512	0.085
Rv1432_day32	-0.489	0.339
Rv1565c_day32	-0.092	0.458
secA2_input	0.269	-0.333
delta_Rv3594	-0.17	-0.099
delta_Rv3717	-0.341	-0.239
delta_Rv3811	-0.439	-0.223
delta_Rv0954	-0.134	0.358
PonA1	-0.008	0.126
EccD1_KO	-0.102	-0.444
EspI_KO	0.268	0.074
PE35_KO	0.257	-0.446
PPE68_KO	0.531	-0.221
glycerol2	0.073	0.276
lignocerate	-0.323	0.284
oleate	0.336	0.216
phosphatidylcholine	0.022	0.387
acetate	-1.034	0.083
glucAc	-0.98	0.264
Rv0950ko	0.271	0.479
Rv1096ko	0.305	-0.13
Rv3684ko	-0.698	0.134
delta_otsA_trehalose	-0.232	0.026