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 Rv0279c/PE_PGRS4

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

	Rv2529/-	Rv0279c/PE_PGRS4
Fe_supp_jason_reseq	0.069	-0.737
low_pH_jason_reseq	0.074	-1.611
NO_jason_reseq	0.039	-0.651
B6_jason_reseq	-0.675	-0.461
MHCII_jason_reseq	-0.446	0.81
Isoniazid02	0.842	0.067
Rifampicin4	0.233	0.745
Ethambutol3	2.382	1.231
Meropenem3	1.251	0.586
Vancomycin16	0.048	0.409
Rv2680_day32	1.313	-0.223
H37Rv_KO_MarP	0.03	0.253
hypoxia_3wks	-0.327	-0.347
hypoxia_6wks	-1.138	-0.735
glycerol	1.641	1.201
cholesterol	-0.435	0.816
AJ	1.007	0.61
Bibs02	-0.55	0.499
Bibs02c	0.355	0.341
BL6	-0.326	-1.068
BL6a	0.31	-0.055
BXD01	0.255	0.227
BXD010	0.607	0.018
BXD011	0.402	-0.071
BXD03	0.79	0.036
BXD04	0.524	0.312
BXD05	1.084	-0.019
BXD06	0.391	0.202
BXD07	0.405	0.143
BXD08	1.154	0.036
BXD09	0.491	0.038
CAST	0.829	0.556
CCcont	0.234	-0.583
DS01	-0.149	0.33
DS02	0.0	0.17
DS04	-0.122	-0.408
DS0c	0.533	-0.492
GP01	1.169	0.149
GP02	1.674	0.556
GP0c	0.805	0.0
NOD	0.166	0.469
NZO	-0.727	0.131
PWK	-0.55	0.104
H37Rv_KO_CtpC	0.567	-0.733
H37Rv_KO_CtpD	0.164	0.221
H37Rv_KO_Rv1272	1.426	0.429
H37Rv_KO_SugABC	0.562	-1.165
H37Rv_KO_MbtN	0.016	-0.182
Trans05	0.976	0.37
macrophage_unactivated	-0.836	0.221
IL1	0.098	-0.94
Rapamycin	-0.068	-1.043
Tcell	-0.336	-0.688
GMCSF	-0.119	-0.095
IFNab	0.789	-1.236
IFNg	-0.537	-1.221
IFNg_GMCSF1	-0.399	-0.792
Rv1432_day32	-0.096	-0.077
Rv1565c_day32	0.276	-0.635
secA2_input	-0.695	0.507
delta_Rv3594	-0.207	-0.34
delta_Rv3717	-0.073	-0.082
delta_Rv3811	-1.596	-0.876
delta_Rv0954	-1.774	-1.376
PonA1	0.081	-0.046
EccD1_KO	0.0	-0.625
EspI_KO	-0.191	-0.682
PE35_KO	0.481	-0.368
PPE68_KO	0.272	-0.845
glycerol2	-0.294	-0.122
lignocerate	0.037	-0.268
oleate	0.084	0.271
phosphatidylcholine	0.181	-0.195
acetate	0.326	0.136
glucAc	0.282	-0.242
Rv0950ko	0.169	-0.326
Rv1096ko	0.434	-0.262
Rv3684ko	0.242	-0.095
delta_otsA_trehalose	1.514	1.165