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 Rv3094c/-:

update plot	correlation	link to info on gene
Rv0906/-	(cc=0.4884)	info on Rv0906/-
Rv0517/-	(cc=0.4629)	info on Rv0517/-
Rv2675c/-	(cc=0.4618)	info on Rv2675c/-
Rv1200/-	(cc=0.4609)	info on Rv1200/-
Rv0488/-	(cc=0.4569)	info on Rv0488/-
Rv1812c/-	(cc=0.4471)	info on Rv1812c/-
Rv1987/-	(cc=0.4359)	info on Rv1987/-
Rv3740c/-	(cc=0.4347)	info on Rv3740c/-
Rv1714/-	(cc=0.434)	info on Rv1714/-
Rv3473c/bpoA	(cc=0.4253)	info on Rv3473c/bpoA

Correlation of Rv3094c/- with Rv1987/-

Normalized LFCs for Rv3094c/-:
(description and provenance of datasets)

	Rv3094c/-	Rv1987/-
Fe_supp_jason_reseq	-0.043	0.813
low_pH_jason_reseq	-0.706	-0.965
NO_jason_reseq	0.323	-0.761
B6_jason_reseq	-0.217	0.082
MHCII_jason_reseq	-0.033	-0.367
Isoniazid02	-0.732	-0.346
Rifampicin4	-0.506	-0.709
Ethambutol3	-0.935	-0.343
Meropenem3	-0.509	-0.765
Vancomycin16	-0.43	-0.053
Rv2680_day32	0.153	0.985
H37Rv_KO_MarP	-0.415	-0.008
hypoxia_3wks	0.271	-1.025
hypoxia_6wks	0.418	-0.265
glycerol	0.319	-0.933
cholesterol	0.194	-0.517
AJ	0.494	-0.679
Bibs02	0.727	0.878
Bibs02c	0.832	0.697
BL6	0.64	0.885
BL6a	0.369	0.422
BXD01	0.168	0.19
BXD010	-0.125	0.059
BXD011	-0.229	0.262
BXD03	-0.442	0.478
BXD04	-0.198	0.068
BXD05	0.489	0.698
BXD06	-0.075	0.355
BXD07	0.158	0.167
BXD08	0.248	0.438
BXD09	-0.023	0.363
CAST	-0.103	-0.289
CCcont	0.784	1.188
DS01	0.44	0.183
DS02	1.015	-0.072
DS04	0.242	0.572
DS0c	1.02	-0.083
GP01	-0.375	0.187
GP02	-0.16	-0.69
GP0c	-0.151	-0.935
NOD	-0.683	-0.295
NZO	-0.358	-0.767
PWK	-1.029	-0.163
H37Rv_KO_CtpC	-0.334	0.154
H37Rv_KO_CtpD	0.0	1.731
H37Rv_KO_Rv1272	0.673	0.848
H37Rv_KO_SugABC	0.774	1.386
H37Rv_KO_MbtN	0.398	-0.315
Trans05	0.07	0.03
macrophage_unactivated	0.363	0.265
IL1	0.273	0.409
Rapamycin	-0.018	0.69
Tcell	0.0	-0.541
GMCSF	-0.259	0.393
IFNab	0.187	0.242
IFNg	0.291	0.398
IFNg_GMCSF1	0.214	0.795
Rv1432_day32	0.287	0.194
Rv1565c_day32	0.943	0.117
secA2_input	0.916	-0.418
delta_Rv3594	0.401	1.086
delta_Rv3717	-0.219	0.703
delta_Rv3811	0.779	0.747
delta_Rv0954	0.832	1.417
PonA1	-0.724	-0.212
EccD1_KO	-0.362	-0.615
EspI_KO	-0.222	-0.331
PE35_KO	0.064	-0.079
PPE68_KO	0.07	0.214
glycerol2	0.912	2.285
lignocerate	1.129	2.814
oleate	0.567	-1.163
phosphatidylcholine	1.063	2.129
acetate	0.386	2.72
glucAc	0.71	2.553
Rv0950ko	0.488	0.033
Rv1096ko	0.395	-0.549
Rv3684ko	1.208	-0.416
delta_otsA_trehalose	-0.197	0.021