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 Rv0479c/-:

update plot	correlation	link to info on gene
Rv1410c/-	(cc=0.4901)	info on Rv1410c/-
Rv2581c/-	(cc=0.4775)	info on Rv2581c/-
Rv2334/cysK1	(cc=0.4572)	info on Rv2334/cysK1
Rv2793c/truB	(cc=0.4569)	info on Rv2793c/truB
Rv1254/-	(cc=0.4554)	info on Rv1254/-
Rv0563/htpX	(cc=0.4508)	info on Rv0563/htpX
Rv2195/qcrA	(cc=0.4359)	info on Rv2195/qcrA
Rv0017c/rodA	(cc=0.4297)	info on Rv0017c/rodA
Rv2207/cobT	(cc=0.4225)	info on Rv2207/cobT
Rv1498c/-	(cc=0.4196)	info on Rv1498c/-

Correlation of Rv0479c/- with Rv2334/cysK1

Normalized LFCs for Rv0479c/-:
(description and provenance of datasets)

	Rv0479c/-	Rv2334/cysK1
Fe_supp_jason_reseq	1.047	2.437
low_pH_jason_reseq	2.13	5.069
NO_jason_reseq	-0.331	1.089
B6_jason_reseq	-0.292	0.357
MHCII_jason_reseq	-0.257	-0.257
Isoniazid02	0.311	3.403
Rifampicin4	-1.283	0.634
Ethambutol3	-0.676	0.285
Meropenem3	-0.883	-0.335
Vancomycin16	-1.257	0.809
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-1.696	1.666
hypoxia_3wks	-0.55	-1.284
hypoxia_6wks	-0.288	0.378
glycerol	0.856	2.455
cholesterol	0.398	1.761
AJ	0.0	0.232
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.53
BL6a	0.0	1.435
BXD01	0.0	2.245
BXD010	0.0	1.115
BXD011	0.0	0.626
BXD03	0.0	1.351
BXD04	0.0	1.184
BXD05	0.0	1.109
BXD06	0.0	1.485
BXD07	0.0	0.768
BXD08	0.0	2.419
BXD09	0.0	0.863
CAST	0.0	3.337
CCcont	0.525	1.492
DS01	0.0	0.45
DS02	0.0	0.217
DS04	0.0	0.37
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	1.507
NZO	0.0	0.0
PWK	0.0	0.196
H37Rv_KO_CtpC	0.688	0.0
H37Rv_KO_CtpD	0.445	0.703
H37Rv_KO_Rv1272	0.693	0.269
H37Rv_KO_SugABC	0.863	0.664
H37Rv_KO_MbtN	0.196	0.283
Trans05	0.642	0.803
macrophage_unactivated	-0.398	0.398
IL1	0.0	-0.409
Rapamycin	0.0	-0.424
Tcell	0.0	-0.45
GMCSF	-0.694	0.0
IFNab	-0.381	-0.417
IFNg	0.0	-0.369
IFNg_GMCSF1	-0.396	0.0
Rv1432_day32	0.0	-0.18
Rv1565c_day32	0.0	1.507
secA2_input	0.25	-1.315
delta_Rv3594	-1.459	-2.522
delta_Rv3717	0.113	-2.896
delta_Rv3811	-0.836	-2.767
delta_Rv0954	-1.769	-0.716
PonA1	-0.054	0.864
EccD1_KO	0.664	0.526
EspI_KO	0.75	2.053
PE35_KO	0.939	0.683
PPE68_KO	-0.237	1.59
glycerol2	0.0	-1.208
lignocerate	0.0	-0.756
oleate	0.0	-1.418
phosphatidylcholine	0.0	-1.401
acetate	0.229	0.72
glucAc	0.272	0.272
Rv0950ko	2.044	1.999
Rv1096ko	0.793	2.925
Rv3684ko	0.0	2.044
delta_otsA_trehalose	-0.431	0.854