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 Rv2318/uspC:

update plot	correlation	link to info on gene
Rv1043c/-	(cc=0.4199)	info on Rv1043c/-
Rv3687c/rsfB	(cc=0.4172)	info on Rv3687c/rsfB
Rv0588/yrbE2B	(cc=0.4068)	info on Rv0588/yrbE2B
Rv2514c/-	(cc=0.4034)	info on Rv2514c/-
Rv2392/cysH	(cc=0.3962)	info on Rv2392/cysH
Rv0364/-	(cc=0.3846)	info on Rv0364/-
Rv0943c/-	(cc=0.3815)	info on Rv0943c/-
Rv3523/ltp3	(cc=0.3781)	info on Rv3523/ltp3
Rv0559c/-	(cc=0.3774)	info on Rv0559c/-
Rv1469/ctpD	(cc=0.3758)	info on Rv1469/ctpD

Correlation of Rv2318/uspC with Rv3523/ltp3

Normalized LFCs for Rv2318/uspC:
(description and provenance of datasets)

	Rv2318/uspC	Rv3523/ltp3
Fe_supp_jason_reseq	1.013	1.209
low_pH_jason_reseq	-0.452	-0.458
NO_jason_reseq	0.352	0.0
B6_jason_reseq	0.527	-0.432
MHCII_jason_reseq	0.193	0.33
Isoniazid02	0.713	1.394
Rifampicin4	-0.712	-0.141
Ethambutol3	0.82	1.557
Meropenem3	0.0	0.143
Vancomycin16	0.743	-0.082
Rv2680_day32	0.38	0.566
H37Rv_KO_MarP	-0.618	0.353
hypoxia_3wks	0.311	0.227
hypoxia_6wks	-0.056	-0.211
glycerol	-0.432	0.208
cholesterol	-0.057	0.588
AJ	0.296	-0.242
Bibs02	0.844	0.579
Bibs02c	-0.447	-0.53
BL6	0.739	0.638
BL6a	0.624	0.36
BXD01	-0.051	0.877
BXD010	1.385	0.794
BXD011	2.132	1.443
BXD03	1.526	0.565
BXD04	-0.207	0.896
BXD05	0.405	1.023
BXD06	0.495	0.867
BXD07	0.152	0.959
BXD08	0.36	1.21
BXD09	0.249	0.851
CAST	0.172	0.382
CCcont	0.265	1.048
DS01	-0.342	-0.599
DS02	0.0	-0.629
DS04	-0.998	0.167
DS0c	-0.984	-1.177
GP01	1.43	-0.333
GP02	-0.742	0.855
GP0c	-0.025	0.367
NOD	0.675	-0.125
NZO	0.629	-0.269
PWK	-0.077	-0.072
H37Rv_KO_CtpC	0.234	0.1
H37Rv_KO_CtpD	-0.574	-0.011
H37Rv_KO_Rv1272	-0.301	-1.154
H37Rv_KO_SugABC	-0.08	1.007
H37Rv_KO_MbtN	-0.633	-0.4
Trans05	0.959	0.36
macrophage_unactivated	0.36	0.133
IL1	0.498	-0.237
Rapamycin	0.178	-0.11
Tcell	0.0	-0.117
GMCSF	0.488	0.665
IFNab	0.345	-0.175
IFNg	0.588	0.561
IFNg_GMCSF1	-0.255	-0.346
Rv1432_day32	-0.314	-0.211
Rv1565c_day32	0.595	0.117
secA2_input	-0.852	-0.106
delta_Rv3594	1.028	-0.473
delta_Rv3717	0.405	-0.341
delta_Rv3811	0.732	-0.159
delta_Rv0954	0.22	-0.196
PonA1	1.019	0.148
EccD1_KO	0.181	-0.924
EspI_KO	-0.337	-0.048
PE35_KO	-0.085	-0.939
PPE68_KO	-0.378	-0.835
glycerol2	0.263	-0.378
lignocerate	0.392	0.172
oleate	-0.442	-0.869
phosphatidylcholine	0.213	-0.143
acetate	0.69	-0.55
glucAc	0.903	-0.098
Rv0950ko	1.722	0.691
Rv1096ko	1.722	0.404
Rv3684ko	1.392	0.596
delta_otsA_trehalose	0.05	-2.137