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 Rv1677/dsbF:

update plot	correlation	link to info on gene
Rv0506/mmpS2	(cc=0.4474)	info on Rv0506/mmpS2
Rv1068c/PE_PGRS20	(cc=0.4223)	info on Rv1068c/PE_PGRS20
Rv1899c/lppD	(cc=0.4029)	info on Rv1899c/lppD
Rv1427c/fadD12	(cc=0.3955)	info on Rv1427c/fadD12
Rv2004c/-	(cc=0.3943)	info on Rv2004c/-
Rv1670/-	(cc=0.3927)	info on Rv1670/-
Rv1916/aceAb	(cc=0.3886)	info on Rv1916/aceAb
Rv0064A/vapB1	(cc=0.3791)	info on Rv0064A/vapB1
Rv2436/rbsK	(cc=0.3763)	info on Rv2436/rbsK
Rv2549c/vapC20	(cc=0.3737)	info on Rv2549c/vapC20

Correlation of Rv1677/dsbF with Rv0506/mmpS2

Normalized LFCs for Rv1677/dsbF:
(description and provenance of datasets)

	Rv1677/dsbF	Rv0506/mmpS2
Fe_supp_jason_reseq	0.188	1.096
low_pH_jason_reseq	0.381	-0.432
NO_jason_reseq	0.0	-0.213
B6_jason_reseq	-0.743	-0.1
MHCII_jason_reseq	-0.655	0.77
Isoniazid02	-1.352	0.25
Rifampicin4	0.303	0.379
Ethambutol3	-1.345	0.116
Meropenem3	-1.701	0.073
Vancomycin16	-0.239	0.273
Rv2680_day32	3.254	1.231
H37Rv_KO_MarP	0.313	0.59
hypoxia_3wks	1.344	1.659
hypoxia_6wks	0.301	1.274
glycerol	0.471	0.584
cholesterol	1.022	0.659
AJ	-0.274	-0.218
Bibs02	-0.294	0.474
Bibs02c	-0.079	1.015
BL6	-0.906	-0.27
BL6a	-1.291	0.827
BXD01	-0.944	0.6
BXD010	-1.134	0.949
BXD011	0.824	0.207
BXD03	-0.79	0.0
BXD04	-0.434	0.744
BXD05	0.0	-0.275
BXD06	-0.87	0.424
BXD07	0.323	0.107
BXD08	0.35	0.279
BXD09	0.102	0.146
CAST	-0.809	0.355
CCcont	-1.198	0.348
DS01	-0.089	-0.012
DS02	1.843	0.629
DS04	0.394	0.209
DS0c	1.765	0.999
GP01	1.303	-0.14
GP02	0.45	0.347
GP0c	-0.049	-0.17
NOD	-1.172	0.145
NZO	-0.808	-0.812
PWK	-0.59	-0.323
H37Rv_KO_CtpC	0.916	1.204
H37Rv_KO_CtpD	2.149	0.818
H37Rv_KO_Rv1272	1.172	0.87
H37Rv_KO_SugABC	0.42	0.272
H37Rv_KO_MbtN	2.278	1.445
Trans05	0.707	0.695
macrophage_unactivated	-0.398	0.723
IL1	0.0	0.018
Rapamycin	-1.034	-0.175
Tcell	-0.411	0.534
GMCSF	0.85	0.953
IFNab	-0.381	0.308
IFNg	0.307	0.655
IFNg_GMCSF1	0.0	-0.16
Rv1432_day32	0.0	0.215
Rv1565c_day32	-0.161	0.908
secA2_input	-1.675	-0.593
delta_Rv3594	-0.125	1.121
delta_Rv3717	0.098	-0.473
delta_Rv3811	-0.59	0.805
delta_Rv0954	-0.606	-0.213
PonA1	-0.34	0.297
EccD1_KO	-0.802	0.766
EspI_KO	0.973	0.97
PE35_KO	0.443	0.508
PPE68_KO	0.394	0.474
glycerol2	0.0	0.198
lignocerate	0.168	0.346
oleate	0.0	0.614
phosphatidylcholine	0.0	0.522
acetate	0.0	0.342
glucAc	0.0	0.111
Rv0950ko	-1.203	0.208
Rv1096ko	0.148	-0.359
Rv3684ko	-1.307	-0.065
delta_otsA_trehalose	0.629	0.162