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 Rv1499/-:

update plot	correlation	link to info on gene
Rv1987/-	(cc=0.5716)	info on Rv1987/-
Rv2544/lppB	(cc=0.5647)	info on Rv2544/lppB
Rv1805c/-	(cc=0.5374)	info on Rv1805c/-
Rv2281/pitB	(cc=0.5036)	info on Rv2281/pitB
Rv2308/-	(cc=0.5025)	info on Rv2308/-
Rv2758c/vapB21	(cc=0.4812)	info on Rv2758c/vapB21
Rv3224B/-	(cc=0.4637)	info on Rv3224B/-
Rv0318c/-	(cc=0.4608)	info on Rv0318c/-
Rv2369c/-	(cc=0.4604)	info on Rv2369c/-
Rv0260c/-	(cc=0.4595)	info on Rv0260c/-

Correlation of Rv1499/- with Rv0318c/-

Normalized LFCs for Rv1499/-:
(description and provenance of datasets)

	Rv1499/-	Rv0318c/-
Fe_supp_jason_reseq	1.255	0.058
low_pH_jason_reseq	-0.432	1.265
NO_jason_reseq	-0.903	0.144
B6_jason_reseq	0.09	-0.141
MHCII_jason_reseq	-0.138	0.08
Isoniazid02	-0.375	0.116
Rifampicin4	-0.536	-0.097
Ethambutol3	-0.331	-0.294
Meropenem3	-0.339	1.397
Vancomycin16	-0.196	0.271
Rv2680_day32	0.175	1.305
H37Rv_KO_MarP	-0.526	0.787
hypoxia_3wks	-0.12	-0.116
hypoxia_6wks	0.574	-0.783
glycerol	-1.131	-0.721
cholesterol	-0.38	-0.642
AJ	0.024	0.247
Bibs02	0.574	0.269
Bibs02c	0.258	0.864
BL6	0.806	0.494
BL6a	-0.225	-0.293
BXD01	0.515	0.745
BXD010	0.021	0.353
BXD011	0.388	0.485
BXD03	1.053	0.472
BXD04	0.749	-0.613
BXD05	0.33	-0.419
BXD06	0.402	0.249
BXD07	0.579	0.138
BXD08	0.927	-0.28
BXD09	0.752	0.381
CAST	0.325	0.299
CCcont	1.221	0.656
DS01	0.086	0.414
DS02	0.036	0.083
DS04	-0.797	-0.363
DS0c	0.357	-0.24
GP01	-0.725	-0.762
GP02	0.852	-0.281
GP0c	-0.44	-0.644
NOD	-0.298	0.304
NZO	0.952	1.188
PWK	-0.074	0.449
H37Rv_KO_CtpC	0.984	0.192
H37Rv_KO_CtpD	1.16	0.186
H37Rv_KO_Rv1272	0.512	-0.504
H37Rv_KO_SugABC	0.481	1.097
H37Rv_KO_MbtN	0.679	-0.74
Trans05	0.207	0.286
macrophage_unactivated	2.838	1.345
IL1	0.638	0.258
Rapamycin	-0.212	0.789
Tcell	1.14	1.362
GMCSF	0.908	0.628
IFNab	0.154	1.055
IFNg	0.556	0.861
IFNg_GMCSF1	0.892	0.927
Rv1432_day32	0.231	1.232
Rv1565c_day32	0.584	-0.145
secA2_input	-0.061	-0.147
delta_Rv3594	-0.286	-0.589
delta_Rv3717	-0.909	-0.692
delta_Rv3811	-0.149	-0.744
delta_Rv0954	-0.423	-0.327
PonA1	-0.616	0.501
EccD1_KO	-0.329	-0.25
EspI_KO	-0.471	-0.24
PE35_KO	-0.239	-0.047
PPE68_KO	0.211	0.0
glycerol2	1.606	1.264
lignocerate	2.356	1.684
oleate	-0.872	0.88
phosphatidylcholine	1.756	1.401
acetate	1.081	1.295
glucAc	1.473	1.056
Rv0950ko	0.817	-0.627
Rv1096ko	-0.308	-0.54
Rv3684ko	-0.334	-0.196
delta_otsA_trehalose	0.256	-0.035