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 Rv0313/-

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

	Rv0483/lprQ	Rv0313/-
Fe_supp_jason_reseq	0.944	2.764
low_pH_jason_reseq	0.402	-0.134
NO_jason_reseq	-1.139	-0.669
B6_jason_reseq	0.621	0.998
MHCII_jason_reseq	1.322	1.373
Isoniazid02	-0.064	-0.109
Rifampicin4	-0.986	-0.468
Ethambutol3	-0.601	0.049
Meropenem3	0.04	-0.105
Vancomycin16	-1.817	-0.557
Rv2680_day32	0.398	0.801
H37Rv_KO_MarP	1.634	1.216
hypoxia_3wks	0.443	0.0
hypoxia_6wks	-0.159	0.132
glycerol	0.989	1.311
cholesterol	0.409	0.054
AJ	-0.188	-0.301
Bibs02	0.07	-1.282
Bibs02c	0.343	1.047
BL6	-0.172	0.508
BL6a	-0.227	1.512
BXD01	-0.541	0.444
BXD010	-0.508	-0.173
BXD011	-0.304	-0.012
BXD03	-0.797	-0.367
BXD04	-0.634	-0.16
BXD05	-0.651	0.658
BXD06	-0.698	0.12
BXD07	-0.508	0.685
BXD08	-0.606	0.574
BXD09	-0.583	0.553
CAST	-0.334	-0.876
CCcont	0.352	1.244
DS01	-0.094	0.773
DS02	-0.315	0.269
DS04	-0.894	-0.074
DS0c	0.36	1.647
GP01	0.152	-0.092
GP02	-0.415	0.082
GP0c	0.179	0.26
NOD	-0.241	-0.809
NZO	-0.195	0.136
PWK	-1.421	-0.813
H37Rv_KO_CtpC	0.972	0.498
H37Rv_KO_CtpD	0.019	-0.406
H37Rv_KO_Rv1272	0.259	0.702
H37Rv_KO_SugABC	-0.402	1.48
H37Rv_KO_MbtN	-0.382	-0.311
Trans05	-0.409	1.331
macrophage_unactivated	0.016	0.455
IL1	-0.314	-0.386
Rapamycin	0.212	0.178
Tcell	-0.701	0.984
GMCSF	0.908	1.164
IFNab	0.082	0.807
IFNg	-0.163	0.321
IFNg_GMCSF1	-0.016	-0.503
Rv1432_day32	0.143	-0.93
Rv1565c_day32	0.42	1.646
secA2_input	0.62	-0.2
delta_Rv3594	0.222	0.081
delta_Rv3717	-0.685	-0.975
delta_Rv3811	0.031	-0.173
delta_Rv0954	-0.384	-0.319
PonA1	-0.077	0.562
EccD1_KO	-0.599	0.536
EspI_KO	-0.322	0.548
PE35_KO	-0.379	0.493
PPE68_KO	-0.912	0.851
glycerol2	0.339	0.486
lignocerate	0.386	0.202
oleate	-0.172	0.19
phosphatidylcholine	0.56	0.382
acetate	-0.465	0.519
glucAc	-0.285	0.496
Rv0950ko	0.778	1.17
Rv1096ko	-0.35	0.612
Rv3684ko	0.036	0.904
delta_otsA_trehalose	0.308	0.631