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 Rv3254/-:

update plot	correlation	link to info on gene
Rv1472/echA12	(cc=0.5954)	info on Rv1472/echA12
Rv1356c/-	(cc=0.5214)	info on Rv1356c/-
Rv1856c/-	(cc=0.4477)	info on Rv1856c/-
Rv2809/-	(cc=0.4041)	info on Rv2809/-
Rv2939/papA5	(cc=0.4003)	info on Rv2939/papA5
Rv2930/fadD26	(cc=0.398)	info on Rv2930/fadD26
Rv2935/ppsE	(cc=0.3927)	info on Rv2935/ppsE
Rv1703c/-	(cc=0.388)	info on Rv1703c/-
Rv2934/ppsD	(cc=0.3828)	info on Rv2934/ppsD
Rv2287/yjcE	(cc=0.3819)	info on Rv2287/yjcE

Correlation of Rv3254/- with Rv1703c/-

Normalized LFCs for Rv3254/-:
(description and provenance of datasets)

	Rv3254/-	Rv1703c/-
Fe_supp_jason_reseq	-0.456	0.107
low_pH_jason_reseq	-0.08	-0.709
NO_jason_reseq	0.903	0.381
B6_jason_reseq	-0.289	0.215
MHCII_jason_reseq	0.926	0.726
Isoniazid02	0.019	0.179
Rifampicin4	-0.517	0.046
Ethambutol3	0.288	0.143
Meropenem3	0.25	0.689
Vancomycin16	-0.255	0.093
Rv2680_day32	-0.491	-0.843
H37Rv_KO_MarP	0.226	-0.161
hypoxia_3wks	-0.032	-0.048
hypoxia_6wks	0.217	-0.357
glycerol	-0.401	-0.556
cholesterol	0.015	0.183
AJ	0.494	0.496
Bibs02	0.433	0.51
Bibs02c	-0.353	-0.064
BL6	0.365	0.876
BL6a	0.039	0.092
BXD01	-0.463	0.342
BXD010	-0.149	0.054
BXD011	-0.35	-0.051
BXD03	0.42	0.085
BXD04	0.318	0.0
BXD05	0.218	0.154
BXD06	-0.241	0.017
BXD07	-0.028	-0.151
BXD08	-0.09	0.163
BXD09	0.148	0.024
CAST	-0.012	0.41
CCcont	0.037	0.503
DS01	0.116	0.262
DS02	0.287	0.232
DS04	-0.433	-0.059
DS0c	0.38	0.778
GP01	0.771	0.301
GP02	0.087	0.234
GP0c	-0.251	0.645
NOD	0.706	0.317
NZO	0.77	0.811
PWK	0.077	-0.196
H37Rv_KO_CtpC	0.339	-0.162
H37Rv_KO_CtpD	0.417	0.923
H37Rv_KO_Rv1272	0.938	0.317
H37Rv_KO_SugABC	0.39	0.276
H37Rv_KO_MbtN	0.591	-0.85
Trans05	0.257	0.841
macrophage_unactivated	2.591	0.129
IL1	-1.068	-0.448
Rapamycin	-0.654	-0.911
Tcell	2.597	0.769
GMCSF	0.407	-0.745
IFNab	-0.46	-0.357
IFNg	-1.045	-0.112
IFNg_GMCSF1	-0.396	-1.024
Rv1432_day32	-0.447	1.047
Rv1565c_day32	0.243	0.731
secA2_input	0.011	-0.249
delta_Rv3594	0.165	-0.295
delta_Rv3717	0.026	-0.701
delta_Rv3811	-0.174	-0.498
delta_Rv0954	-0.646	-0.536
PonA1	-0.6	0.119
EccD1_KO	0.243	-0.069
EspI_KO	0.368	0.733
PE35_KO	0.904	0.718
PPE68_KO	1.184	0.787
glycerol2	-0.038	0.476
lignocerate	0.487	0.554
oleate	0.111	0.352
phosphatidylcholine	0.406	0.665
acetate	0.066	-0.236
glucAc	-0.108	-0.196
Rv0950ko	-0.621	0.395
Rv1096ko	-0.112	-0.283
Rv3684ko	-0.223	0.445
delta_otsA_trehalose	0.75	-0.066