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 Rv0658c/-:

update plot	correlation	link to info on gene
Rv2529/-	(cc=0.5138)	info on Rv2529/-
Rv3430c/-	(cc=0.4962)	info on Rv3430c/-
Rv2118c/-	(cc=0.4919)	info on Rv2118c/-
Rv1582c/-	(cc=0.4896)	info on Rv1582c/-
Rv1871c/-	(cc=0.465)	info on Rv1871c/-
Rv2519/PE26	(cc=0.4521)	info on Rv2519/PE26
Rv1785c/cyp143	(cc=0.4407)	info on Rv1785c/cyp143
Rv2582/ppiB	(cc=0.4231)	info on Rv2582/ppiB
Rv1729c/-	(cc=0.4201)	info on Rv1729c/-
Rv0907/-	(cc=0.4193)	info on Rv0907/-

Correlation of Rv0658c/- with Rv2529/-

Normalized LFCs for Rv0658c/-:
(description and provenance of datasets)

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