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 Rv2308/-

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

	Rv1499/-	Rv2308/-
Fe_supp_jason_reseq	1.255	0.702
low_pH_jason_reseq	-0.432	-0.744
NO_jason_reseq	-0.903	-0.407
B6_jason_reseq	0.09	0.621
MHCII_jason_reseq	-0.138	-0.272
Isoniazid02	-0.375	-0.925
Rifampicin4	-0.536	0.412
Ethambutol3	-0.331	-0.624
Meropenem3	-0.339	-0.353
Vancomycin16	-0.196	-0.332
Rv2680_day32	0.175	0.79
H37Rv_KO_MarP	-0.526	-0.035
hypoxia_3wks	-0.12	-0.144
hypoxia_6wks	0.574	-0.823
glycerol	-1.131	-1.22
cholesterol	-0.38	-0.363
AJ	0.024	0.02
Bibs02	0.574	-0.025
Bibs02c	0.258	0.009
BL6	0.806	0.099
BL6a	-0.225	0.165
BXD01	0.515	-1.147
BXD010	0.021	0.296
BXD011	0.388	-0.042
BXD03	1.053	-0.277
BXD04	0.749	-0.017
BXD05	0.33	0.355
BXD06	0.402	-0.209
BXD07	0.579	-0.269
BXD08	0.927	-0.237
BXD09	0.752	0.099
CAST	0.325	-0.075
CCcont	1.221	0.233
DS01	0.086	-0.212
DS02	0.036	-0.009
DS04	-0.797	-0.263
DS0c	0.357	-0.328
GP01	-0.725	-0.421
GP02	0.852	-0.444
GP0c	-0.44	-0.318
NOD	-0.298	-0.304
NZO	0.952	0.319
PWK	-0.074	0.467
H37Rv_KO_CtpC	0.984	-0.171
H37Rv_KO_CtpD	1.16	0.891
H37Rv_KO_Rv1272	0.512	-0.033
H37Rv_KO_SugABC	0.481	-0.559
H37Rv_KO_MbtN	0.679	0.555
Trans05	0.207	0.596
macrophage_unactivated	2.838	0.672
IL1	0.638	0.131
Rapamycin	-0.212	0.233
Tcell	1.14	-0.518
GMCSF	0.908	0.298
IFNab	0.154	0.526
IFNg	0.556	0.516
IFNg_GMCSF1	0.892	0.437
Rv1432_day32	0.231	0.016
Rv1565c_day32	0.584	-0.471
secA2_input	-0.061	-0.941
delta_Rv3594	-0.286	-0.093
delta_Rv3717	-0.909	0.096
delta_Rv3811	-0.149	0.291
delta_Rv0954	-0.423	-0.665
PonA1	-0.616	0.338
EccD1_KO	-0.329	0.069
EspI_KO	-0.471	0.165
PE35_KO	-0.239	0.403
PPE68_KO	0.211	0.186
glycerol2	1.606	0.989
lignocerate	2.356	1.419
oleate	-0.872	-0.166
phosphatidylcholine	1.756	0.989
acetate	1.081	0.786
glucAc	1.473	1.334
Rv0950ko	0.817	0.241
Rv1096ko	-0.308	-0.51
Rv3684ko	-0.334	0.0
delta_otsA_trehalose	0.256	0.958