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 Rv1854c/ndh:

update plot	correlation	link to info on gene
Rv0973c/accA2	(cc=0.5649)	info on Rv0973c/accA2
Rv2842c/-	(cc=0.5435)	info on Rv2842c/-
Rv2374c/hrcA	(cc=0.5417)	info on Rv2374c/hrcA
Rv1116/-	(cc=0.54)	info on Rv1116/-
Rv1925/fadD31	(cc=0.5306)	info on Rv1925/fadD31
Rv0055/rpsR1	(cc=0.5223)	info on Rv0055/rpsR1
Rv2243/fabD	(cc=0.5181)	info on Rv2243/fabD
Rv3361c/-	(cc=0.5137)	info on Rv3361c/-
Rv3152/nuoH	(cc=0.5104)	info on Rv3152/nuoH
Rv3112/moaD1	(cc=0.504)	info on Rv3112/moaD1

Correlation of Rv1854c/ndh with Rv1925/fadD31

Normalized LFCs for Rv1854c/ndh:
(description and provenance of datasets)

	Rv1854c/ndh	Rv1925/fadD31
Fe_supp_jason_reseq	0.0	1.332
low_pH_jason_reseq	0.694	1.553
NO_jason_reseq	-0.69	0.291
B6_jason_reseq	-0.292	2.287
MHCII_jason_reseq	-0.257	0.401
Isoniazid02	0.551	-0.943
Rifampicin4	0.0	-2.166
Ethambutol3	0.0	-0.22
Meropenem3	0.454	-0.709
Vancomycin16	0.0	-5.027
Rv2680_day32	0.0	1.518
H37Rv_KO_MarP	0.371	0.454
hypoxia_3wks	0.0	-3.246
hypoxia_6wks	0.464	1.942
glycerol	0.0	0.875
cholesterol	0.0	0.805
AJ	0.0	0.555
Bibs02	0.183	0.619
Bibs02c	0.0	0.762
BL6	2.702	2.426
BL6a	1.633	3.626
BXD01	1.985	3.932
BXD010	2.767	3.693
BXD011	2.116	5.692
BXD03	0.75	2.496
BXD04	1.656	4.113
BXD05	0.135	3.297
BXD06	1.934	4.596
BXD07	0.851	4.152
BXD08	3.214	4.38
BXD09	1.998	4.226
CAST	0.0	1.168
CCcont	0.733	0.689
DS01	0.0	0.773
DS02	0.0	0.803
DS04	0.0	1.334
DS0c	0.0	-0.016
GP01	0.0	2.856
GP02	0.0	3.646
GP0c	0.0	2.237
NOD	0.0	-0.57
NZO	0.0	1.357
PWK	0.0	3.684
H37Rv_KO_CtpC	3.466	1.444
H37Rv_KO_CtpD	0.0	-0.219
H37Rv_KO_Rv1272	2.343	3.107
H37Rv_KO_SugABC	0.0	1.881
H37Rv_KO_MbtN	0.506	4.596
Trans05	1.305	3.83
macrophage_unactivated	-1.051	-3.608
IL1	1.293	-0.217
Rapamycin	0.129	-0.697
Tcell	0.267	0.375
GMCSF	-1.172	-3.601
IFNab	-0.547	0.511
IFNg	0.815	-0.569
IFNg_GMCSF1	-1.046	-0.946
Rv1432_day32	0.0	0.554
Rv1565c_day32	0.0	-3.911
secA2_input	1.634	0.009
delta_Rv3594	0.211	0.422
delta_Rv3717	1.165	2.923
delta_Rv3811	0.0	1.325
delta_Rv0954	0.0	-1.804
PonA1	0.0	-2.193
EccD1_KO	0.793	-2.273
EspI_KO	1.275	-2.313
PE35_KO	0.368	-2.654
PPE68_KO	0.403	-2.4
glycerol2	0.0	0.198
lignocerate	0.168	-0.038
oleate	0.0	-1.096
phosphatidylcholine	0.0	0.342
acetate	0.437	-0.261
glucAc	0.501	0.266
Rv0950ko	-1.894	-1.248
Rv1096ko	-1.167	-1.553
Rv3684ko	1.428	0.527
delta_otsA_trehalose	-0.468	-0.149