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 Rv0483/lprQ:

update plot	correlation	link to info on gene
Rv1823/-	(cc=0.6835)	info on Rv1823/-
Rv2203/-	(cc=0.6803)	info on Rv2203/-
Rv1825/-	(cc=0.6361)	info on Rv1825/-
Rv3586/-	(cc=0.5988)	info on Rv3586/-
Rv0012/-	(cc=0.5968)	info on Rv0012/-
Rv2171/lppM	(cc=0.5947)	info on Rv2171/lppM
Rv0265c/-	(cc=0.5658)	info on Rv0265c/-
Rv1635c/-	(cc=0.4926)	info on Rv1635c/-
Rv0538/-	(cc=0.4671)	info on Rv0538/-
Rv0313/-	(cc=0.4575)	info on Rv0313/-

Correlation of Rv0483/lprQ with Rv1635c/-

Normalized LFCs for Rv0483/lprQ:
(description and provenance of datasets)

	Rv0483/lprQ	Rv1635c/-
Fe_supp_jason_reseq	0.944	0.905
low_pH_jason_reseq	0.402	0.606
NO_jason_reseq	-1.139	-0.378
B6_jason_reseq	0.621	0.07
MHCII_jason_reseq	1.322	0.511
Isoniazid02	-0.064	1.027
Rifampicin4	-0.986	-0.604
Ethambutol3	-0.601	-0.641
Meropenem3	0.04	1.043
Vancomycin16	-1.817	-1.756
Rv2680_day32	0.398	0.375
H37Rv_KO_MarP	1.634	1.654
hypoxia_3wks	0.443	-0.227
hypoxia_6wks	-0.159	-0.292
glycerol	0.989	-0.148
cholesterol	0.409	-0.354
AJ	-0.188	0.025
Bibs02	0.07	0.666
Bibs02c	0.343	0.603
BL6	-0.172	-0.263
BL6a	-0.227	0.636
BXD01	-0.541	0.082
BXD010	-0.508	0.17
BXD011	-0.304	0.187
BXD03	-0.797	-0.407
BXD04	-0.634	0.072
BXD05	-0.651	-0.274
BXD06	-0.698	-0.067
BXD07	-0.508	0.163
BXD08	-0.606	0.014
BXD09	-0.583	0.131
CAST	-0.334	-0.642
CCcont	0.352	0.212
DS01	-0.094	0.748
DS02	-0.315	0.991
DS04	-0.894	-0.822
DS0c	0.36	0.781
GP01	0.152	1.044
GP02	-0.415	0.607
GP0c	0.179	0.823
NOD	-0.241	0.404
NZO	-0.195	0.217
PWK	-1.421	-0.706
H37Rv_KO_CtpC	0.972	0.819
H37Rv_KO_CtpD	0.019	0.896
H37Rv_KO_Rv1272	0.259	0.963
H37Rv_KO_SugABC	-0.402	0.273
H37Rv_KO_MbtN	-0.382	0.936
Trans05	-0.409	1.176
macrophage_unactivated	0.016	0.881
IL1	-0.314	0.116
Rapamycin	0.212	0.393
Tcell	-0.701	0.466
GMCSF	0.908	0.702
IFNab	0.082	0.142
IFNg	-0.163	0.021
IFNg_GMCSF1	-0.016	0.666
Rv1432_day32	0.143	1.043
Rv1565c_day32	0.42	-0.347
secA2_input	0.62	-0.296
delta_Rv3594	0.222	0.09
delta_Rv3717	-0.685	0.103
delta_Rv3811	0.031	-0.309
delta_Rv0954	-0.384	0.283
PonA1	-0.077	-0.78
EccD1_KO	-0.599	0.602
EspI_KO	-0.322	0.431
PE35_KO	-0.379	-0.035
PPE68_KO	-0.912	0.285
glycerol2	0.339	0.736
lignocerate	0.386	0.676
oleate	-0.172	1.591
phosphatidylcholine	0.56	1.053
acetate	-0.465	0.229
glucAc	-0.285	0.234
Rv0950ko	0.778	0.178
Rv1096ko	-0.35	-0.184
Rv3684ko	0.036	0.105
delta_otsA_trehalose	0.308	0.443