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 Rv2369c/-

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

	Rv1499/-	Rv2369c/-
Fe_supp_jason_reseq	1.255	-1.225
low_pH_jason_reseq	-0.432	-0.017
NO_jason_reseq	-0.903	0.134
B6_jason_reseq	0.09	-0.944
MHCII_jason_reseq	-0.138	-1.494
Isoniazid02	-0.375	1.097
Rifampicin4	-0.536	-1.002
Ethambutol3	-0.331	-0.175
Meropenem3	-0.339	-0.597
Vancomycin16	-0.196	0.958
Rv2680_day32	0.175	0.471
H37Rv_KO_MarP	-0.526	-0.672
hypoxia_3wks	-0.12	-0.331
hypoxia_6wks	0.574	0.935
glycerol	-1.131	-1.947
cholesterol	-0.38	0.036
AJ	0.024	1.435
Bibs02	0.574	0.298
Bibs02c	0.258	-1.065
BL6	0.806	0.391
BL6a	-0.225	0.897
BXD01	0.515	0.479
BXD010	0.021	0.0
BXD011	0.388	0.857
BXD03	1.053	1.748
BXD04	0.749	0.703
BXD05	0.33	1.534
BXD06	0.402	1.016
BXD07	0.579	0.66
BXD08	0.927	0.524
BXD09	0.752	1.49
CAST	0.325	-3.425
CCcont	1.221	0.995
DS01	0.086	1.126
DS02	0.036	0.4
DS04	-0.797	-1.196
DS0c	0.357	-0.453
GP01	-0.725	1.737
GP02	0.852	-0.124
GP0c	-0.44	0.125
NOD	-0.298	-4.353
NZO	0.952	0.389
PWK	-0.074	-1.08
H37Rv_KO_CtpC	0.984	0.349
H37Rv_KO_CtpD	1.16	-0.206
H37Rv_KO_Rv1272	0.512	0.901
H37Rv_KO_SugABC	0.481	-1.704
H37Rv_KO_MbtN	0.679	-0.314
Trans05	0.207	-0.489
macrophage_unactivated	2.838	0.028
IL1	0.638	-0.555
Rapamycin	-0.212	-0.509
Tcell	1.14	-0.313
GMCSF	0.908	0.143
IFNab	0.154	0.789
IFNg	0.556	0.719
IFNg_GMCSF1	0.892	-1.115
Rv1432_day32	0.231	0.0
Rv1565c_day32	0.584	-1.643
secA2_input	-0.061	0.388
delta_Rv3594	-0.286	-1.973
delta_Rv3717	-0.909	-0.971
delta_Rv3811	-0.149	-0.388
delta_Rv0954	-0.423	-1.202
PonA1	-0.616	-0.955
EccD1_KO	-0.329	-0.335
EspI_KO	-0.471	-0.77
PE35_KO	-0.239	0.537
PPE68_KO	0.211	0.496
glycerol2	1.606	2.638
lignocerate	2.356	3.687
oleate	-0.872	-1.843
phosphatidylcholine	1.756	3.011
acetate	1.081	3.38
glucAc	1.473	2.841
Rv0950ko	0.817	0.277
Rv1096ko	-0.308	-0.784
Rv3684ko	-0.334	0.252
delta_otsA_trehalose	0.256	2.48