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 Rv3638/-:

update plot	correlation	link to info on gene
Rv1989c/-	(cc=0.5864)	info on Rv1989c/-
Rv1374c/-	(cc=0.5662)	info on Rv1374c/-
Rv0849/-	(cc=0.55)	info on Rv0849/-
Rv1843c/guaB1	(cc=0.5423)	info on Rv1843c/guaB1
Rv2081c/-	(cc=0.5422)	info on Rv2081c/-
Rv1735c/-	(cc=0.5413)	info on Rv1735c/-
Rv0233/nrdB	(cc=0.5381)	info on Rv0233/nrdB
Rv1734c/-	(cc=0.5265)	info on Rv1734c/-
Rv0764c/cyp51	(cc=0.524)	info on Rv0764c/cyp51
Rv0846c/-	(cc=0.5185)	info on Rv0846c/-

Correlation of Rv3638/- with Rv1989c/-

Normalized LFCs for Rv3638/-:
(description and provenance of datasets)

	Rv3638/-	Rv1989c/-
Fe_supp_jason_reseq	0.081	-0.633
low_pH_jason_reseq	-0.144	-0.243
NO_jason_reseq	-0.139	0.446
B6_jason_reseq	0.405	0.514
MHCII_jason_reseq	0.936	0.217
Isoniazid02	-0.124	0.499
Rifampicin4	-0.585	-0.915
Ethambutol3	-0.28	0.931
Meropenem3	-0.087	-0.738
Vancomycin16	-0.096	-0.26
Rv2680_day32	1.23	0.615
H37Rv_KO_MarP	0.8	0.049
hypoxia_3wks	-0.04	-0.187
hypoxia_6wks	0.297	-0.221
glycerol	-3.169	-1.791
cholesterol	-1.042	-0.893
AJ	0.037	-0.034
Bibs02	0.115	0.442
Bibs02c	0.045	0.138
BL6	-1.463	-1.171
BL6a	-0.251	-0.36
BXD01	-0.507	-0.451
BXD010	-1.283	-1.432
BXD011	-0.76	-0.947
BXD03	-0.637	-0.586
BXD04	0.181	-0.24
BXD05	-0.669	-0.529
BXD06	-0.399	-1.085
BXD07	-0.507	-0.764
BXD08	-0.72	-0.912
BXD09	-0.514	-0.975
CAST	-0.377	-0.087
CCcont	-1.698	-1.18
DS01	0.243	-0.05
DS02	0.339	0.314
DS04	0.55	0.008
DS0c	0.192	-0.041
GP01	0.797	0.022
GP02	-0.644	1.252
GP0c	0.062	-0.335
NOD	0.153	0.221
NZO	0.374	-0.452
PWK	-0.121	-0.121
H37Rv_KO_CtpC	-0.632	-0.824
H37Rv_KO_CtpD	0.04	-0.613
H37Rv_KO_Rv1272	-0.187	0.126
H37Rv_KO_SugABC	0.418	-0.039
H37Rv_KO_MbtN	0.044	0.025
Trans05	-0.335	0.533
macrophage_unactivated	-1.297	-0.546
IL1	-1.219	-1.056
Rapamycin	-1.016	-1.114
Tcell	-1.131	-0.564
GMCSF	-1.127	-0.826
IFNab	-1.001	-0.602
IFNg	-0.804	0.219
IFNg_GMCSF1	-0.446	0.053
Rv1432_day32	-0.789	0.493
Rv1565c_day32	1.17	0.548
secA2_input	-0.778	-0.888
delta_Rv3594	-0.014	0.85
delta_Rv3717	-0.648	0.337
delta_Rv3811	-0.581	0.573
delta_Rv0954	0.35	0.417
PonA1	0.178	0.083
EccD1_KO	-0.362	0.661
EspI_KO	-0.371	-0.114
PE35_KO	0.076	0.248
PPE68_KO	0.432	-0.128
glycerol2	0.015	0.083
lignocerate	-0.627	0.153
oleate	0.092	0.349
phosphatidylcholine	0.207	0.218
acetate	-0.559	-0.472
glucAc	-0.881	-0.616
Rv0950ko	-0.054	0.28
Rv1096ko	0.443	0.057
Rv3684ko	-0.308	-0.377
delta_otsA_trehalose	0.021	1.837