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 Rv2529/-:

update plot	correlation	link to info on gene
Rv2071c/cobM	(cc=0.5615)	info on Rv2071c/cobM
Rv1215c/-	(cc=0.5143)	info on Rv1215c/-
Rv0658c/-	(cc=0.5138)	info on Rv0658c/-
Rv1785c/cyp143	(cc=0.4703)	info on Rv1785c/cyp143
Rv0907/-	(cc=0.4624)	info on Rv0907/-
Rv0844c/narL	(cc=0.4601)	info on Rv0844c/narL
Rv0454/-	(cc=0.4512)	info on Rv0454/-
Rv3430c/-	(cc=0.4468)	info on Rv3430c/-
Rv0279c/PE_PGRS4	(cc=0.4465)	info on Rv0279c/PE_PGRS4
Rv1729c/-	(cc=0.446)	info on Rv1729c/-

Correlation of Rv2529/- with Rv0658c/-

Normalized LFCs for Rv2529/-:
(description and provenance of datasets)

	Rv2529/-	Rv0658c/-
Fe_supp_jason_reseq	0.069	-0.098
low_pH_jason_reseq	0.074	1.136
NO_jason_reseq	0.039	0.181
B6_jason_reseq	-0.675	-0.294
MHCII_jason_reseq	-0.446	-0.491
Isoniazid02	0.842	1.817
Rifampicin4	0.233	-0.36
Ethambutol3	2.382	1.704
Meropenem3	1.251	0.742
Vancomycin16	0.048	0.462
Rv2680_day32	1.313	-0.581
H37Rv_KO_MarP	0.03	-0.605
hypoxia_3wks	-0.327	0.0
hypoxia_6wks	-1.138	-0.487
glycerol	1.641	0.26
cholesterol	-0.435	-0.094
AJ	1.007	0.143
Bibs02	-0.55	0.768
Bibs02c	0.355	-0.209
BL6	-0.326	-0.399
BL6a	0.31	0.416
BXD01	0.255	0.547
BXD010	0.607	0.092
BXD011	0.402	-0.251
BXD03	0.79	0.821
BXD04	0.524	-0.039
BXD05	1.084	0.097
BXD06	0.391	0.589
BXD07	0.405	0.085
BXD08	1.154	0.632
BXD09	0.491	0.168
CAST	0.829	0.187
CCcont	0.234	0.164
DS01	-0.149	-0.128
DS02	0.0	0.26
DS04	-0.122	1.332
DS0c	0.533	-0.141
GP01	1.169	0.32
GP02	1.674	0.379
GP0c	0.805	0.192
NOD	0.166	0.093
NZO	-0.727	-0.419
PWK	-0.55	-0.085
H37Rv_KO_CtpC	0.567	-0.018
H37Rv_KO_CtpD	0.164	0.103
H37Rv_KO_Rv1272	1.426	1.527
H37Rv_KO_SugABC	0.562	0.975
H37Rv_KO_MbtN	0.016	1.614
Trans05	0.976	1.35
macrophage_unactivated	-0.836	0.126
IL1	0.098	0.833
Rapamycin	-0.068	-0.212
Tcell	-0.336	-0.512
GMCSF	-0.119	0.499
IFNab	0.789	-0.384
IFNg	-0.537	-0.5
IFNg_GMCSF1	-0.399	0.085
Rv1432_day32	-0.096	-0.763
Rv1565c_day32	0.276	0.682
secA2_input	-0.695	-0.371
delta_Rv3594	-0.207	-0.41
delta_Rv3717	-0.073	-0.549
delta_Rv3811	-1.596	-0.87
delta_Rv0954	-1.774	-1.795
PonA1	0.081	0.126
EccD1_KO	0.0	0.184
EspI_KO	-0.191	0.425
PE35_KO	0.481	0.204
PPE68_KO	0.272	-0.531
glycerol2	-0.294	-0.297
lignocerate	0.037	0.134
oleate	0.084	-0.138
phosphatidylcholine	0.181	-0.231
acetate	0.326	0.017
glucAc	0.282	-0.244
Rv0950ko	0.169	0.495
Rv1096ko	0.434	-0.38
Rv3684ko	0.242	0.576
delta_otsA_trehalose	1.514	0.129