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 Rv0454/-

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

	Rv2529/-	Rv0454/-
Fe_supp_jason_reseq	0.069	-0.603
low_pH_jason_reseq	0.074	-1.353
NO_jason_reseq	0.039	-0.701
B6_jason_reseq	-0.675	-0.519
MHCII_jason_reseq	-0.446	-0.323
Isoniazid02	0.842	2.137
Rifampicin4	0.233	0.29
Ethambutol3	2.382	4.387
Meropenem3	1.251	0.593
Vancomycin16	0.048	0.241
Rv2680_day32	1.313	0.579
H37Rv_KO_MarP	0.03	-0.357
hypoxia_3wks	-0.327	0.407
hypoxia_6wks	-1.138	0.787
glycerol	1.641	0.483
cholesterol	-0.435	-1.043
AJ	1.007	0.351
Bibs02	-0.55	0.217
Bibs02c	0.355	-0.767
BL6	-0.326	-0.395
BL6a	0.31	-0.458
BXD01	0.255	0.155
BXD010	0.607	-0.053
BXD011	0.402	-0.006
BXD03	0.79	-0.163
BXD04	0.524	0.049
BXD05	1.084	0.47
BXD06	0.391	0.069
BXD07	0.405	0.017
BXD08	1.154	0.079
BXD09	0.491	-0.202
CAST	0.829	-0.364
CCcont	0.234	-0.12
DS01	-0.149	-0.339
DS02	0.0	0.154
DS04	-0.122	0.661
DS0c	0.533	0.121
GP01	1.169	0.632
GP02	1.674	-0.254
GP0c	0.805	-0.778
NOD	0.166	0.159
NZO	-0.727	0.126
PWK	-0.55	0.358
H37Rv_KO_CtpC	0.567	0.866
H37Rv_KO_CtpD	0.164	0.065
H37Rv_KO_Rv1272	1.426	1.187
H37Rv_KO_SugABC	0.562	1.824
H37Rv_KO_MbtN	0.016	-0.202
Trans05	0.976	1.495
macrophage_unactivated	-0.836	-1.382
IL1	0.098	-1.053
Rapamycin	-0.068	-0.601
Tcell	-0.336	-0.085
GMCSF	-0.119	0.15
IFNab	0.789	0.094
IFNg	-0.537	-1.04
IFNg_GMCSF1	-0.399	0.195
Rv1432_day32	-0.096	0.873
Rv1565c_day32	0.276	-0.641
secA2_input	-0.695	0.346
delta_Rv3594	-0.207	0.239
delta_Rv3717	-0.073	-0.891
delta_Rv3811	-1.596	0.068
delta_Rv0954	-1.774	-0.317
PonA1	0.081	-0.431
EccD1_KO	0.0	-0.681
EspI_KO	-0.191	-0.764
PE35_KO	0.481	-0.473
PPE68_KO	0.272	-1.024
glycerol2	-0.294	-0.014
lignocerate	0.037	-0.057
oleate	0.084	-0.143
phosphatidylcholine	0.181	-0.371
acetate	0.326	-0.514
glucAc	0.282	-0.65
Rv0950ko	0.169	-0.359
Rv1096ko	0.434	-0.455
Rv3684ko	0.242	-0.285
delta_otsA_trehalose	1.514	1.032