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 Rv1288/-:

update plot	correlation	link to info on gene
Rv0444c/rskA	(cc=0.4839)	info on Rv0444c/rskA
Rv1048c/-	(cc=0.4793)	info on Rv1048c/-
Rv1716/-	(cc=0.4655)	info on Rv1716/-
Rv2504c/scoA	(cc=0.4457)	info on Rv2504c/scoA
Rv0908/ctpE	(cc=0.4374)	info on Rv0908/ctpE
Rv2597/-	(cc=0.4302)	info on Rv2597/-
Rv2570/-	(cc=0.4122)	info on Rv2570/-
Rv1482c/-	(cc=0.4105)	info on Rv1482c/-
Rv1969/mce3D	(cc=0.4077)	info on Rv1969/mce3D
Rv2305/-	(cc=0.4025)	info on Rv2305/-

Correlation of Rv1288/- with Rv0444c/rskA

Normalized LFCs for Rv1288/-:
(description and provenance of datasets)

	Rv1288/-	Rv0444c/rskA
Fe_supp_jason_reseq	-0.069	0.671
low_pH_jason_reseq	-0.52	0.345
NO_jason_reseq	-0.116	-0.034
B6_jason_reseq	-0.17	0.782
MHCII_jason_reseq	0.444	0.697
Isoniazid02	0.068	0.02
Rifampicin4	-0.181	-1.394
Ethambutol3	1.507	1.181
Meropenem3	0.386	0.413
Vancomycin16	0.17	-0.318
Rv2680_day32	0.156	-1.186
H37Rv_KO_MarP	0.282	0.052
hypoxia_3wks	-0.108	0.072
hypoxia_6wks	-0.067	-0.038
glycerol	-0.604	0.18
cholesterol	1.546	-0.317
AJ	0.329	0.965
Bibs02	-0.02	-1.123
Bibs02c	-0.047	0.537
BL6	0.027	0.768
BL6a	-0.075	0.435
BXD01	-0.049	0.426
BXD010	0.119	0.482
BXD011	0.535	0.448
BXD03	0.143	0.062
BXD04	0.168	-0.343
BXD05	0.646	0.818
BXD06	0.105	0.39
BXD07	0.272	0.895
BXD08	0.137	0.924
BXD09	0.177	0.125
CAST	0.22	-0.504
CCcont	-0.554	0.196
DS01	-0.484	0.055
DS02	-0.274	-0.775
DS04	0.186	1.05
DS0c	-0.368	-0.295
GP01	0.479	1.186
GP02	0.242	1.026
GP0c	0.164	1.151
NOD	0.898	0.225
NZO	-0.13	0.829
PWK	0.279	0.449
H37Rv_KO_CtpC	-0.132	-0.552
H37Rv_KO_CtpD	-0.634	0.631
H37Rv_KO_Rv1272	0.575	0.126
H37Rv_KO_SugABC	0.271	0.64
H37Rv_KO_MbtN	-0.043	-0.655
Trans05	0.52	0.777
macrophage_unactivated	-0.047	0.578
IL1	0.264	0.845
Rapamycin	-0.196	1.132
Tcell	-0.016	0.808
GMCSF	0.523	0.156
IFNab	-0.178	0.263
IFNg	0.115	1.344
IFNg_GMCSF1	0.336	1.049
Rv1432_day32	0.279	-1.25
Rv1565c_day32	3.183	2.95
secA2_input	-0.778	-1.442
delta_Rv3594	0.113	0.798
delta_Rv3717	-0.525	0.12
delta_Rv3811	-0.086	-0.54
delta_Rv0954	-0.017	-0.202
PonA1	0.134	-0.103
EccD1_KO	0.763	1.016
EspI_KO	0.702	0.724
PE35_KO	0.618	0.114
PPE68_KO	0.953	0.522
glycerol2	-0.108	-0.691
lignocerate	-0.108	-0.537
oleate	-0.058	-1.117
phosphatidylcholine	0.206	-0.69
acetate	-0.337	-0.198
glucAc	-0.287	-1.599
Rv0950ko	-0.154	-0.479
Rv1096ko	-0.259	-0.09
Rv3684ko	0.128	-0.151
delta_otsA_trehalose	-0.033	-0.103