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 Rv3430c/-

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

	Rv2529/-	Rv3430c/-
Fe_supp_jason_reseq	0.069	0.175
low_pH_jason_reseq	0.074	0.574
NO_jason_reseq	0.039	-0.268
B6_jason_reseq	-0.675	0.089
MHCII_jason_reseq	-0.446	0.606
Isoniazid02	0.842	1.013
Rifampicin4	0.233	0.336
Ethambutol3	2.382	1.192
Meropenem3	1.251	0.949
Vancomycin16	0.048	0.443
Rv2680_day32	1.313	0.146
H37Rv_KO_MarP	0.03	-0.151
hypoxia_3wks	-0.327	-0.427
hypoxia_6wks	-1.138	-0.175
glycerol	1.641	0.092
cholesterol	-0.435	-0.353
AJ	1.007	-0.415
Bibs02	-0.55	0.298
Bibs02c	0.355	0.095
BL6	-0.326	0.407
BL6a	0.31	0.712
BXD01	0.255	0.562
BXD010	0.607	0.764
BXD011	0.402	0.436
BXD03	0.79	0.893
BXD04	0.524	0.67
BXD05	1.084	0.549
BXD06	0.391	0.375
BXD07	0.405	0.498
BXD08	1.154	0.594
BXD09	0.491	0.551
CAST	0.829	-0.429
CCcont	0.234	0.407
DS01	-0.149	0.275
DS02	0.0	-0.389
DS04	-0.122	0.43
DS0c	0.533	0.552
GP01	1.169	-0.226
GP02	1.674	0.529
GP0c	0.805	0.038
NOD	0.166	0.285
NZO	-0.727	-0.223
PWK	-0.55	-0.07
H37Rv_KO_CtpC	0.567	0.214
H37Rv_KO_CtpD	0.164	0.821
H37Rv_KO_Rv1272	1.426	0.434
H37Rv_KO_SugABC	0.562	0.408
H37Rv_KO_MbtN	0.016	0.622
Trans05	0.976	0.569
macrophage_unactivated	-0.836	0.625
IL1	0.098	0.128
Rapamycin	-0.068	-0.338
Tcell	-0.336	0.332
GMCSF	-0.119	0.016
IFNab	0.789	0.148
IFNg	-0.537	0.227
IFNg_GMCSF1	-0.399	0.192
Rv1432_day32	-0.096	-0.03
Rv1565c_day32	0.276	0.346
secA2_input	-0.695	0.089
delta_Rv3594	-0.207	-0.906
delta_Rv3717	-0.073	-0.63
delta_Rv3811	-1.596	-0.968
delta_Rv0954	-1.774	-0.512
PonA1	0.081	-0.878
EccD1_KO	0.0	0.023
EspI_KO	-0.191	-0.12
PE35_KO	0.481	0.715
PPE68_KO	0.272	0.557
glycerol2	-0.294	0.305
lignocerate	0.037	0.241
oleate	0.084	0.224
phosphatidylcholine	0.181	0.916
acetate	0.326	-0.138
glucAc	0.282	-0.177
Rv0950ko	0.169	0.784
Rv1096ko	0.434	-0.021
Rv3684ko	0.242	0.151
delta_otsA_trehalose	1.514	0.686