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 Rv2670c/-:

update plot	correlation	link to info on gene
Rv0470A/-	(cc=0.6088)	info on Rv0470A/-
Rv2646/-	(cc=0.5715)	info on Rv2646/-
Rv0435c/-	(cc=0.5599)	info on Rv0435c/-
Rv0418/lpqL	(cc=0.5356)	info on Rv0418/lpqL
Rv3319/sdhB	(cc=0.5232)	info on Rv3319/sdhB
Rv1775/-	(cc=0.5155)	info on Rv1775/-
Rv0229c/-	(cc=0.5)	info on Rv0229c/-
Rv2725c/hflX	(cc=0.4999)	info on Rv2725c/hflX
Rv3401/-	(cc=0.4851)	info on Rv3401/-
Rv3062/ligB	(cc=0.4833)	info on Rv3062/ligB

Correlation of Rv2670c/- with Rv0229c/-

Normalized LFCs for Rv2670c/-:
(description and provenance of datasets)

	Rv2670c/-	Rv0229c/-
Fe_supp_jason_reseq	0.219	0.813
low_pH_jason_reseq	0.393	-0.32
NO_jason_reseq	0.452	-0.184
B6_jason_reseq	1.09	1.177
MHCII_jason_reseq	0.724	0.76
Isoniazid02	-0.019	0.909
Rifampicin4	-0.035	0.225
Ethambutol3	-0.479	1.019
Meropenem3	2.538	1.029
Vancomycin16	0.231	0.31
Rv2680_day32	-0.138	-0.057
H37Rv_KO_MarP	-0.109	0.82
hypoxia_3wks	0.518	-0.179
hypoxia_6wks	0.428	-0.319
glycerol	1.153	-0.538
cholesterol	0.535	-0.273
AJ	-1.403	-0.313
Bibs02	0.152	0.041
Bibs02c	0.591	1.122
BL6	0.123	0.289
BL6a	-0.016	0.354
BXD01	-0.964	-0.479
BXD010	-0.455	0.217
BXD011	-0.77	-0.998
BXD03	0.209	-0.36
BXD04	-0.524	-1.112
BXD05	-0.913	-0.695
BXD06	-1.327	-0.629
BXD07	-1.141	-0.464
BXD08	-0.564	-0.805
BXD09	-0.85	-0.324
CAST	-0.484	-0.08
CCcont	-0.669	-0.421
DS01	0.963	0.423
DS02	0.199	0.6
DS04	0.628	0.5
DS0c	0.335	-0.115
GP01	-0.763	0.177
GP02	-0.577	-0.174
GP0c	-1.142	0.233
NOD	0.792	0.708
NZO	0.387	0.308
PWK	-0.786	-0.523
H37Rv_KO_CtpC	0.16	-0.652
H37Rv_KO_CtpD	0.087	-0.435
H37Rv_KO_Rv1272	-0.795	-0.387
H37Rv_KO_SugABC	-0.408	-0.599
H37Rv_KO_MbtN	-1.003	-0.886
Trans05	-0.261	0.406
macrophage_unactivated	-0.413	1.758
IL1	0.27	0.24
Rapamycin	0.049	-0.11
Tcell	-0.104	0.339
GMCSF	-0.486	-0.063
IFNab	-0.665	0.574
IFNg	0.163	0.155
IFNg_GMCSF1	0.685	0.597
Rv1432_day32	-0.031	0.403
Rv1565c_day32	-0.565	-0.057
secA2_input	0.338	-0.435
delta_Rv3594	-0.266	-0.551
delta_Rv3717	-0.756	-0.609
delta_Rv3811	-0.97	-0.535
delta_Rv0954	0.466	0.372
PonA1	-0.201	-0.11
EccD1_KO	0.204	0.105
EspI_KO	-0.428	-0.416
PE35_KO	0.356	-0.195
PPE68_KO	0.246	-0.323
glycerol2	-0.384	0.376
lignocerate	-0.462	0.078
oleate	-0.342	0.163
phosphatidylcholine	-0.141	0.031
acetate	-0.168	-0.667
glucAc	-0.508	-0.385
Rv0950ko	0.727	0.654
Rv1096ko	1.3	1.439
Rv3684ko	0.91	0.514
delta_otsA_trehalose	-0.368	-0.449