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 Rv0071/-:

update plot	correlation	link to info on gene
Rv3612c/-	(cc=0.6207)	info on Rv3612c/-
Rv2651c/-	(cc=0.5984)	info on Rv2651c/-
Rv0237/lpqI	(cc=0.5977)	info on Rv0237/lpqI
Rv3450c/eccB4	(cc=0.5688)	info on Rv3450c/eccB4
Rv0918/-	(cc=0.5683)	info on Rv0918/-
Rv1181/pks4	(cc=0.5651)	info on Rv1181/pks4
Rv1184c/-	(cc=0.5614)	info on Rv1184c/-
Rv2636/-	(cc=0.5337)	info on Rv2636/-
Rv0856/-	(cc=0.5323)	info on Rv0856/-
Rv0601c/-	(cc=0.5215)	info on Rv0601c/-

Correlation of Rv0071/- with Rv2636/-

Normalized LFCs for Rv0071/-:
(description and provenance of datasets)

	Rv0071/-	Rv2636/-
Fe_supp_jason_reseq	0.624	-0.073
low_pH_jason_reseq	-0.139	-0.942
NO_jason_reseq	0.517	0.071
B6_jason_reseq	1.764	1.243
MHCII_jason_reseq	1.675	1.783
Isoniazid02	0.073	-0.55
Rifampicin4	0.75	0.162
Ethambutol3	1.131	0.417
Meropenem3	0.694	-1.06
Vancomycin16	0.218	-0.642
Rv2680_day32	1.537	1.092
H37Rv_KO_MarP	0.059	0.013
hypoxia_3wks	-0.152	0.056
hypoxia_6wks	-0.182	-0.186
glycerol	1.16	0.263
cholesterol	1.207	0.048
AJ	-0.504	0.345
Bibs02	0.474	0.177
Bibs02c	0.887	0.358
BL6	0.441	-0.987
BL6a	-0.265	-0.442
BXD01	-0.919	-1.222
BXD010	-0.781	-0.989
BXD011	-0.745	-1.507
BXD03	-1.044	-1.037
BXD04	-0.664	-1.588
BXD05	-0.091	-0.968
BXD06	-0.636	-1.495
BXD07	-0.722	-1.077
BXD08	-0.8	-0.781
BXD09	-0.69	-1.87
CAST	0.235	0.174
CCcont	-0.342	-1.767
DS01	0.301	0.399
DS02	0.767	0.578
DS04	0.51	-0.409
DS0c	-0.093	0.083
GP01	-2.601	-0.456
GP02	-2.703	-0.744
GP0c	-1.661	-0.677
NOD	1.694	0.574
NZO	0.027	0.126
PWK	0.443	-0.057
H37Rv_KO_CtpC	0.0	-1.77
H37Rv_KO_CtpD	0.247	-0.581
H37Rv_KO_Rv1272	-0.757	-1.089
H37Rv_KO_SugABC	-0.655	-1.719
H37Rv_KO_MbtN	-0.546	-0.848
Trans05	-0.911	-0.088
macrophage_unactivated	0.085	-0.653
IL1	0.181	-0.445
Rapamycin	0.779	-0.546
Tcell	-0.088	-0.867
GMCSF	0.671	-0.446
IFNab	-0.366	-1.155
IFNg	-0.171	-0.136
IFNg_GMCSF1	0.776	-0.079
Rv1432_day32	0.426	-0.16
Rv1565c_day32	1.978	0.062
secA2_input	1.85	1.133
delta_Rv3594	-0.136	-0.601
delta_Rv3717	-0.409	-0.271
delta_Rv3811	-0.201	-0.458
delta_Rv0954	0.828	0.151
PonA1	0.177	-0.324
EccD1_KO	-1.727	-0.151
EspI_KO	-1.931	0.271
PE35_KO	-1.248	-0.079
PPE68_KO	-1.017	-0.266
glycerol2	0.422	0.534
lignocerate	0.559	0.498
oleate	-0.903	0.303
phosphatidylcholine	0.172	0.709
acetate	0.321	0.156
glucAc	0.587	0.155
Rv0950ko	0.066	-0.027
Rv1096ko	0.709	-0.25
Rv3684ko	-0.072	-0.662
delta_otsA_trehalose	1.156	0.719