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 Rv1207/folP2:

update plot	correlation	link to info on gene
Rv2161c/-	(cc=0.5292)	info on Rv2161c/-
Rv3151/nuoG	(cc=0.5277)	info on Rv3151/nuoG
Rv2970A/-	(cc=0.5221)	info on Rv2970A/-
Rv1616/-	(cc=0.5142)	info on Rv1616/-
Rv3158/nuoN	(cc=0.5141)	info on Rv3158/nuoN
Rv0971c/echA7	(cc=0.5047)	info on Rv0971c/echA7
Rv2548/vapC19	(cc=0.5033)	info on Rv2548/vapC19
Rv3835/-	(cc=0.5022)	info on Rv3835/-
Rv3150/nuoF	(cc=0.5012)	info on Rv3150/nuoF
Rv1397c/vapC10	(cc=0.495)	info on Rv1397c/vapC10

Correlation of Rv1207/folP2 with Rv2970A/-

Normalized LFCs for Rv1207/folP2:
(description and provenance of datasets)

	Rv1207/folP2	Rv2970A/-
Fe_supp_jason_reseq	-1.651	1.023
low_pH_jason_reseq	-0.415	0.835
NO_jason_reseq	-2.83	-0.572
B6_jason_reseq	-0.964	0.598
MHCII_jason_reseq	-1.368	-1.115
Isoniazid02	0.118	2.002
Rifampicin4	0.772	0.409
Ethambutol3	2.741	5.696
Meropenem3	0.835	0.444
Vancomycin16	0.456	0.846
Rv2680_day32	-0.228	0.715
H37Rv_KO_MarP	1.136	0.968
hypoxia_3wks	-0.758	-0.778
hypoxia_6wks	-1.263	0.766
glycerol	-1.097	-0.389
cholesterol	1.186	0.184
AJ	-1.153	-1.704
Bibs02	0.758	-1.269
Bibs02c	0.476	0.303
BL6	0.757	3.312
BL6a	0.664	2.184
BXD01	0.296	2.485
BXD010	2.245	1.936
BXD011	2.472	2.424
BXD03	1.603	2.181
BXD04	0.964	1.689
BXD05	1.861	3.209
BXD06	0.527	2.483
BXD07	0.923	2.987
BXD08	1.339	1.885
BXD09	1.095	2.328
CAST	0.0	0.699
CCcont	0.647	2.221
DS01	-0.968	0.527
DS02	0.684	-0.866
DS04	-0.358	-1.196
DS0c	-1.284	-0.735
GP01	-0.118	-1.621
GP02	-0.91	-1.116
GP0c	-0.197	-0.156
NOD	-1.22	1.051
NZO	-1.503	-0.62
PWK	0.698	0.118
H37Rv_KO_CtpC	0.406	0.293
H37Rv_KO_CtpD	0.684	0.051
H37Rv_KO_Rv1272	0.557	0.802
H37Rv_KO_SugABC	1.301	-0.749
H37Rv_KO_MbtN	0.234	1.533
Trans05	1.035	0.0
macrophage_unactivated	0.051	1.414
IL1	1.243	1.706
Rapamycin	0.368	0.482
Tcell	0.622	0.577
GMCSF	-0.214	0.304
IFNab	0.78	1.684
IFNg	-1.713	0.318
IFNg_GMCSF1	-1.175	0.657
Rv1432_day32	-1.172	0.0
Rv1565c_day32	-1.641	-0.599
secA2_input	-0.463	2.779
delta_Rv3594	-0.369	-0.672
delta_Rv3717	-1.617	-0.248
delta_Rv3811	-1.581	-0.822
delta_Rv0954	-1.244	-2.417
PonA1	-0.382	0.0
EccD1_KO	0.516	0.099
EspI_KO	-0.22	-0.89
PE35_KO	-0.767	0.058
PPE68_KO	-1.017	-0.032
glycerol2	-0.687	0.835
lignocerate	-0.82	2.012
oleate	0.723	0.434
phosphatidylcholine	-0.179	1.303
acetate	0.08	1.652
glucAc	-0.617	1.092
Rv0950ko	-0.633	0.823
Rv1096ko	-0.685	-0.106
Rv3684ko	1.248	-1.323
delta_otsA_trehalose	-0.211	-1.271