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 Rv1702c/-:

update plot	correlation	link to info on gene
Rv0659c/mazF2	(cc=0.4413)	info on Rv0659c/mazF2
Rv0388c/PPE9	(cc=0.4379)	info on Rv0388c/PPE9
Rv2880c/-	(cc=0.4163)	info on Rv2880c/-
Rv3521/-	(cc=0.4146)	info on Rv3521/-
Rv3451/cut3	(cc=0.4125)	info on Rv3451/cut3
Rv2302/-	(cc=0.4112)	info on Rv2302/-
Rv1000c/-	(cc=0.3977)	info on Rv1000c/-
Rv2349c/plcC	(cc=0.392)	info on Rv2349c/plcC
Rv3095/-	(cc=0.39)	info on Rv3095/-
Rv2704/-	(cc=0.3706)	info on Rv2704/-

Correlation of Rv1702c/- with Rv0659c/mazF2

Normalized LFCs for Rv1702c/-:
(description and provenance of datasets)

	Rv1702c/-	Rv0659c/mazF2
Fe_supp_jason_reseq	0.508	2.262
low_pH_jason_reseq	-1.246	0.074
NO_jason_reseq	0.504	0.811
B6_jason_reseq	0.204	1.417
MHCII_jason_reseq	0.512	2.051
Isoniazid02	0.0	-0.019
Rifampicin4	0.027	0.271
Ethambutol3	-0.063	-0.072
Meropenem3	-0.252	0.468
Vancomycin16	0.135	0.793
Rv2680_day32	-0.432	0.197
H37Rv_KO_MarP	0.025	-0.714
hypoxia_3wks	-0.159	0.108
hypoxia_6wks	-0.367	-0.102
glycerol	0.164	-0.187
cholesterol	-0.155	-0.725
AJ	0.326	0.03
Bibs02	0.789	0.375
Bibs02c	0.123	0.108
BL6	-0.422	0.655
BL6a	0.257	0.217
BXD01	-0.032	-0.687
BXD010	0.35	-0.021
BXD011	0.159	0.261
BXD03	0.117	-0.069
BXD04	-0.133	-0.236
BXD05	0.231	0.319
BXD06	-0.024	0.303
BXD07	-0.304	0.027
BXD08	0.085	0.912
BXD09	-0.078	0.054
CAST	0.122	0.404
CCcont	-0.444	-0.345
DS01	-0.072	0.453
DS02	-0.054	0.295
DS04	0.86	0.989
DS0c	-0.107	-0.396
GP01	-0.024	-0.554
GP02	0.332	0.24
GP0c	0.112	0.291
NOD	0.08	0.773
NZO	0.507	-0.094
PWK	0.48	1.204
H37Rv_KO_CtpC	-0.111	0.062
H37Rv_KO_CtpD	-0.56	-0.703
H37Rv_KO_Rv1272	0.19	1.723
H37Rv_KO_SugABC	0.595	0.794
H37Rv_KO_MbtN	-0.576	-0.98
Trans05	0.217	0.755
macrophage_unactivated	0.35	1.035
IL1	0.635	-0.131
Rapamycin	0.552	0.779
Tcell	0.026	0.0
GMCSF	0.581	0.848
IFNab	0.269	0.375
IFNg	0.021	0.126
IFNg_GMCSF1	0.588	1.21
Rv1432_day32	0.242	-0.332
Rv1565c_day32	-0.161	0.0
secA2_input	0.157	-1.644
delta_Rv3594	-0.255	-0.018
delta_Rv3717	-0.333	-0.725
delta_Rv3811	-0.18	-0.21
delta_Rv0954	0.446	-0.496
PonA1	-0.381	-0.739
EccD1_KO	0.717	-0.095
EspI_KO	0.365	-0.299
PE35_KO	-0.411	0.128
PPE68_KO	0.346	0.154
glycerol2	-0.485	-0.499
lignocerate	-0.145	-0.11
oleate	-0.115	-0.421
phosphatidylcholine	0.119	-0.499
acetate	-0.449	-0.209
glucAc	-0.279	0.021
Rv0950ko	0.265	-0.19
Rv1096ko	-0.069	-0.054
Rv3684ko	-0.229	-0.255
delta_otsA_trehalose	-0.323	0.068