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 Rv0549c/vapC3:

update plot	correlation	link to info on gene
Rv1314c/-	(cc=0.4455)	info on Rv1314c/-
Rv3497c/mce4C	(cc=0.4166)	info on Rv3497c/mce4C
Rv2261c/-	(cc=0.4099)	info on Rv2261c/-
Rv3496c/mce4D	(cc=0.402)	info on Rv3496c/mce4D
Rv1492/mutA	(cc=0.399)	info on Rv1492/mutA
Rv2855/mtr	(cc=0.3922)	info on Rv2855/mtr
Rv1569/bioF1	(cc=0.3871)	info on Rv1569/bioF1
Rv3501c/yrbE4A	(cc=0.3816)	info on Rv3501c/yrbE4A
Rv1259/udgB	(cc=0.3792)	info on Rv1259/udgB
Rv3492c/-	(cc=0.3778)	info on Rv3492c/-

Correlation of Rv0549c/vapC3 with Rv2855/mtr

Normalized LFCs for Rv0549c/vapC3:
(description and provenance of datasets)

	Rv0549c/vapC3	Rv2855/mtr
Fe_supp_jason_reseq	2.234	-0.163
low_pH_jason_reseq	0.201	1.715
NO_jason_reseq	0.226	-0.415
B6_jason_reseq	-0.805	-0.114
MHCII_jason_reseq	1.217	-0.839
Isoniazid02	0.455	1.285
Rifampicin4	0.677	-0.252
Ethambutol3	1.021	-0.173
Meropenem3	0.072	0.204
Vancomycin16	0.597	0.231
Rv2680_day32	-0.305	0.131
H37Rv_KO_MarP	0.569	0.502
hypoxia_3wks	0.614	0.263
hypoxia_6wks	-0.501	0.0
glycerol	0.162	-0.061
cholesterol	-0.631	-0.392
AJ	-1.788	-1.612
Bibs02	-2.853	-1.893
Bibs02c	1.585	-0.567
BL6	1.041	0.037
BL6a	1.012	0.0
BXD01	0.276	0.778
BXD010	0.318	-0.039
BXD011	-0.415	1.595
BXD03	0.594	0.153
BXD04	-0.098	0.14
BXD05	-0.915	-0.126
BXD06	0.619	0.498
BXD07	0.587	0.395
BXD08	1.437	0.0
BXD09	0.77	0.464
CAST	-1.138	-0.215
CCcont	0.61	0.525
DS01	-0.948	-0.299
DS02	-1.24	-0.676
DS04	0.299	-0.603
DS0c	-0.28	-1.053
GP01	0.433	-0.433
GP02	1.789	-0.68
GP0c	-0.091	-0.981
NOD	-1.31	-0.609
NZO	-2.159	-0.186
PWK	0.158	0.274
H37Rv_KO_CtpC	0.304	0.672
H37Rv_KO_CtpD	-2.21	-0.499
H37Rv_KO_Rv1272	0.432	-0.132
H37Rv_KO_SugABC	-0.254	-0.231
H37Rv_KO_MbtN	-1.051	-0.716
Trans05	1.153	0.666
macrophage_unactivated	0.366	-0.133
IL1	0.148	-0.125
Rapamycin	0.525	-0.261
Tcell	0.815	0.629
GMCSF	0.106	0.51
IFNab	-0.45	0.0
IFNg	-0.11	0.214
IFNg_GMCSF1	-1.854	-0.852
Rv1432_day32	0.804	-0.859
Rv1565c_day32	-0.456	-0.057
secA2_input	1.295	1.005
delta_Rv3594	1.031	-0.471
delta_Rv3717	1.399	0.378
delta_Rv3811	-0.775	-0.085
delta_Rv0954	0.279	0.388
PonA1	0.335	0.293
EccD1_KO	1.197	0.898
EspI_KO	0.667	1.78
PE35_KO	1.269	0.335
PPE68_KO	0.71	0.71
glycerol2	-0.121	-0.062
lignocerate	0.651	0.027
oleate	0.569	0.394
phosphatidylcholine	0.377	0.176
acetate	0.725	-0.437
glucAc	0.028	-0.385
Rv0950ko	-0.663	0.262
Rv1096ko	0.642	1.384
Rv3684ko	1.585	0.144
delta_otsA_trehalose	0.623	1.645