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 Rv2594c/ruvC:

update plot	correlation	link to info on gene
Rv3139/fadE24	(cc=0.6078)	info on Rv3139/fadE24
Rv3577/-	(cc=0.5449)	info on Rv3577/-
Rv2516c/-	(cc=0.518)	info on Rv2516c/-
Rv0436c/pssA	(cc=0.5065)	info on Rv0436c/pssA
Rv0437c/psd	(cc=0.4974)	info on Rv0437c/psd
Rv0551c/fadD8	(cc=0.4896)	info on Rv0551c/fadD8
Rv0143c/-	(cc=0.4891)	info on Rv0143c/-
Rv3742c/-	(cc=0.4885)	info on Rv3742c/-
Rv1068c/PE_PGRS20	(cc=0.4855)	info on Rv1068c/PE_PGRS20
Rv1347c/mbtK	(cc=0.481)	info on Rv1347c/mbtK

Correlation of Rv2594c/ruvC with Rv0437c/psd

Normalized LFCs for Rv2594c/ruvC:
(description and provenance of datasets)

	Rv2594c/ruvC	Rv0437c/psd
Fe_supp_jason_reseq	0.218	0.923
low_pH_jason_reseq	0.0	0.842
NO_jason_reseq	0.0	-0.69
B6_jason_reseq	0.0	-0.292
MHCII_jason_reseq	0.0	-0.123
Isoniazid02	-0.351	1.106
Rifampicin4	-1.026	-2.05
Ethambutol3	-0.461	-1.327
Meropenem3	-0.289	-2.165
Vancomycin16	-1.005	-5.385
Rv2680_day32	0.0	-0.359
H37Rv_KO_MarP	0.0	-1.926
hypoxia_3wks	0.0	-0.885
hypoxia_6wks	0.0	-1.013
glycerol	0.0	0.184
cholesterol	0.0	1.049
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	1.613
BL6	0.0	0.0
BL6a	0.0	0.346
BXD01	0.0	-0.13
BXD010	0.0	-0.128
BXD011	0.0	0.222
BXD03	0.0	-0.135
BXD04	0.0	-0.124
BXD05	0.0	-0.135
BXD06	0.0	-0.133
BXD07	0.0	-0.138
BXD08	0.0	-0.133
BXD09	0.0	-0.14
CAST	0.0	-0.23
CCcont	0.733	2.54
DS01	0.0	0.926
DS02	0.0	-0.217
DS04	0.0	0.177
DS0c	0.0	0.0
GP01	0.0	0.172
GP02	0.0	-0.083
GP0c	0.0	0.0
NOD	0.0	-0.225
NZO	0.0	-0.199
PWK	0.0	-0.196
H37Rv_KO_CtpC	0.0	2.059
H37Rv_KO_CtpD	0.0	0.221
H37Rv_KO_Rv1272	0.0	0.457
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.927
Trans05	0.0	-0.131
macrophage_unactivated	0.0	-0.363
IL1	0.0	-0.715
Rapamycin	0.0	1.188
Tcell	0.0	-1.235
GMCSF	0.0	0.283
IFNab	0.0	0.323
IFNg	0.0	-1.013
IFNg_GMCSF1	0.0	-1.191
Rv1432_day32	0.0	-0.884
Rv1565c_day32	0.0	0.924
secA2_input	0.412	0.371
delta_Rv3594	0.211	0.506
delta_Rv3717	0.0	-1.723
delta_Rv3811	0.0	0.134
delta_Rv0954	0.99	1.647
PonA1	0.304	0.829
EccD1_KO	0.0	0.855
EspI_KO	-0.394	0.79
PE35_KO	0.703	1.482
PPE68_KO	0.0	1.245
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.63	0.0
glucAc	0.0	0.0
Rv0950ko	0.38	-0.899
Rv1096ko	0.38	0.546
Rv3684ko	0.789	0.062
delta_otsA_trehalose	1.482	0.04