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 Rv1598c/-:

update plot	correlation	link to info on gene
Rv1776c/-	(cc=0.5725)	info on Rv1776c/-
Rv0844c/narL	(cc=0.5699)	info on Rv0844c/narL
Rv2545/vapB18	(cc=0.5142)	info on Rv2545/vapB18
Rv0131c/fadE1	(cc=0.5109)	info on Rv0131c/fadE1
Rv2071c/cobM	(cc=0.4988)	info on Rv2071c/cobM
Rv3628/ppa	(cc=0.4878)	info on Rv3628/ppa
Rv2548A/-	(cc=0.4811)	info on Rv2548A/-
Rv1871c/-	(cc=0.475)	info on Rv1871c/-
Rv1583c/-	(cc=0.4559)	info on Rv1583c/-
Rv3036c/TB22.2	(cc=0.4446)	info on Rv3036c/TB22.2

Correlation of Rv1598c/- with Rv2545/vapB18

Normalized LFCs for Rv1598c/-:
(description and provenance of datasets)

	Rv1598c/-	Rv2545/vapB18
Fe_supp_jason_reseq	-0.101	0.137
low_pH_jason_reseq	-0.43	-0.49
NO_jason_reseq	-0.57	0.116
B6_jason_reseq	-2.25	-1.036
MHCII_jason_reseq	-1.365	-1.423
Isoniazid02	0.898	0.374
Rifampicin4	0.057	0.081
Ethambutol3	0.026	0.393
Meropenem3	-0.277	0.204
Vancomycin16	0.454	0.716
Rv2680_day32	0.78	0.343
H37Rv_KO_MarP	-0.257	0.337
hypoxia_3wks	-0.658	0.666
hypoxia_6wks	0.752	-0.687
glycerol	0.929	2.109
cholesterol	0.624	0.807
AJ	-0.392	-0.015
Bibs02	0.156	0.478
Bibs02c	-0.676	0.577
BL6	1.5	0.84
BL6a	-0.09	0.898
BXD01	0.571	0.825
BXD010	1.393	0.789
BXD011	1.554	0.293
BXD03	0.357	1.178
BXD04	-0.79	0.856
BXD05	0.195	0.654
BXD06	0.155	0.258
BXD07	0.045	0.651
BXD08	0.523	1.018
BXD09	-0.165	0.533
CAST	0.587	0.874
CCcont	0.61	1.162
DS01	0.128	1.032
DS02	-0.703	0.6
DS04	0.146	-0.076
DS0c	-0.453	0.556
GP01	0.226	0.418
GP02	-1.152	1.606
GP0c	0.765	1.085
NOD	-0.076	0.168
NZO	-1.49	-0.092
PWK	-0.547	0.493
H37Rv_KO_CtpC	-0.171	1.776
H37Rv_KO_CtpD	1.076	1.744
H37Rv_KO_Rv1272	1.206	1.339
H37Rv_KO_SugABC	0.894	1.148
H37Rv_KO_MbtN	1.943	1.293
Trans05	1.179	1.398
macrophage_unactivated	0.249	1.07
IL1	0.068	-0.258
Rapamycin	-0.611	0.034
Tcell	-0.114	0.127
GMCSF	0.121	0.689
IFNab	-0.142	1.037
IFNg	-0.428	0.532
IFNg_GMCSF1	-0.148	0.421
Rv1432_day32	0.566	0.325
Rv1565c_day32	0.163	-0.081
secA2_input	1.295	-0.189
delta_Rv3594	-1.872	0.196
delta_Rv3717	-0.799	-0.024
delta_Rv3811	-1.224	-0.094
delta_Rv0954	-1.976	-1.215
PonA1	-0.998	-0.552
EccD1_KO	0.043	0.428
EspI_KO	1.146	1.352
PE35_KO	1.4	0.965
PPE68_KO	0.669	0.323
glycerol2	0.07	0.951
lignocerate	0.36	0.854
oleate	0.449	0.994
phosphatidylcholine	0.265	1.071
acetate	0.424	0.216
glucAc	-0.403	0.243
Rv0950ko	0.531	0.452
Rv1096ko	0.0	-0.651
Rv3684ko	-0.072	-0.157
delta_otsA_trehalose	-1.62	0.405