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 Rv3857c/-:

update plot	correlation	link to info on gene
Rv0822c/-	(cc=0.6251)	info on Rv0822c/-
Rv0305c/PPE6	(cc=0.5321)	info on Rv0305c/PPE6
Rv0272c/-	(cc=0.518)	info on Rv0272c/-
Rv2718c/nrdR	(cc=0.486)	info on Rv2718c/nrdR
Rv0114/gmhB	(cc=0.4631)	info on Rv0114/gmhB
Rv2695/-	(cc=0.4616)	info on Rv2695/-
Rv0074/-	(cc=0.452)	info on Rv0074/-
Rv3826/fadD23	(cc=0.4468)	info on Rv3826/fadD23
Rv0213c/-	(cc=0.4416)	info on Rv0213c/-
Rv3787c/-	(cc=0.4378)	info on Rv3787c/-

Correlation of Rv3857c/- with Rv0822c/-

Normalized LFCs for Rv3857c/-:
(description and provenance of datasets)

	Rv3857c/-	Rv0822c/-
Fe_supp_jason_reseq	0.483	-0.336
low_pH_jason_reseq	-0.313	-0.756
NO_jason_reseq	-0.11	-0.27
B6_jason_reseq	-0.528	-1.076
MHCII_jason_reseq	-0.032	-0.457
Isoniazid02	0.258	0.109
Rifampicin4	0.368	-0.19
Ethambutol3	-0.074	0.764
Meropenem3	1.325	0.317
Vancomycin16	0.371	0.334
Rv2680_day32	-0.66	-0.501
H37Rv_KO_MarP	0.15	-0.617
hypoxia_3wks	0.076	0.159
hypoxia_6wks	0.714	0.157
glycerol	0.622	-0.161
cholesterol	0.186	0.331
AJ	0.163	0.353
Bibs02	0.114	0.144
Bibs02c	1.507	0.502
BL6	-0.02	0.743
BL6a	1.478	1.042
BXD01	0.741	0.715
BXD010	1.076	1.18
BXD011	0.564	0.663
BXD03	0.506	1.16
BXD04	0.98	0.707
BXD05	0.211	0.905
BXD06	0.209	1.181
BXD07	0.458	1.02
BXD08	-0.271	0.768
BXD09	0.354	1.011
CAST	-0.028	0.536
CCcont	0.516	0.625
DS01	1.081	0.549
DS02	1.875	0.181
DS04	0.943	0.869
DS0c	0.842	0.528
GP01	-0.824	1.013
GP02	0.684	0.996
GP0c	-0.115	0.214
NOD	2.579	0.83
NZO	-0.779	0.763
PWK	1.708	1.06
H37Rv_KO_CtpC	-0.634	0.627
H37Rv_KO_CtpD	1.678	1.105
H37Rv_KO_Rv1272	1.285	0.322
H37Rv_KO_SugABC	1.318	0.431
H37Rv_KO_MbtN	1.061	0.005
Trans05	0.668	0.975
macrophage_unactivated	0.139	0.59
IL1	0.101	0.139
Rapamycin	-0.595	0.261
Tcell	0.326	0.678
GMCSF	-0.919	0.961
IFNab	-0.166	0.532
IFNg	-0.593	0.326
IFNg_GMCSF1	-0.487	0.16
Rv1432_day32	1.901	0.681
Rv1565c_day32	-5.489	-1.72
secA2_input	-1.11	-0.517
delta_Rv3594	-1.072	-0.116
delta_Rv3717	-1.645	-0.316
delta_Rv3811	-1.216	-0.29
delta_Rv0954	-0.478	-0.649
PonA1	-0.461	-0.352
EccD1_KO	-0.506	-0.5
EspI_KO	-2.099	-0.117
PE35_KO	-0.942	-0.23
PPE68_KO	-2.073	-0.784
glycerol2	-0.915	-0.175
lignocerate	-1.059	-0.524
oleate	-1.018	0.007
phosphatidylcholine	-1.335	-0.62
acetate	-2.051	-1.034
glucAc	-1.108	-0.789
Rv0950ko	-0.133	-0.335
Rv1096ko	0.305	0.44
Rv3684ko	1.562	0.013
delta_otsA_trehalose	-0.173	0.707