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 Rv3686c/-:

update plot	correlation	link to info on gene
Rv0932c/pstS2	(cc=0.4817)	info on Rv0932c/pstS2
Rv1399c/nlhH	(cc=0.4813)	info on Rv1399c/nlhH
Rv0065/vapC1	(cc=0.4717)	info on Rv0065/vapC1
Rv0148/-	(cc=0.4705)	info on Rv0148/-
Rv0194/-	(cc=0.446)	info on Rv0194/-
Rv1488/-	(cc=0.4367)	info on Rv1488/-
Rv3108/-	(cc=0.4325)	info on Rv3108/-
Rv1947/-	(cc=0.4302)	info on Rv1947/-
Rv2947c/pks15	(cc=0.4174)	info on Rv2947c/pks15
Rv2345/-	(cc=0.4158)	info on Rv2345/-

Correlation of Rv3686c/- with Rv1488/-

Normalized LFCs for Rv3686c/-:
(description and provenance of datasets)

	Rv3686c/-	Rv1488/-
Fe_supp_jason_reseq	-0.354	0.177
low_pH_jason_reseq	-1.596	-1.091
NO_jason_reseq	-0.685	-0.053
B6_jason_reseq	-0.767	0.089
MHCII_jason_reseq	-0.201	-0.209
Isoniazid02	-1.333	-1.899
Rifampicin4	-0.969	0.623
Ethambutol3	-1.155	-0.277
Meropenem3	-1.345	-0.646
Vancomycin16	-0.541	-0.777
Rv2680_day32	0.434	0.748
H37Rv_KO_MarP	0.167	-0.444
hypoxia_3wks	0.0	0.654
hypoxia_6wks	-0.209	0.725
glycerol	-0.187	0.439
cholesterol	0.243	-0.435
AJ	-0.597	0.323
Bibs02	-0.17	0.621
Bibs02c	0.255	-0.72
BL6	-0.72	0.723
BL6a	0.159	0.276
BXD01	0.326	0.797
BXD010	-0.059	0.533
BXD011	0.112	0.6
BXD03	0.298	0.392
BXD04	0.592	1.853
BXD05	-0.081	0.724
BXD06	0.117	0.646
BXD07	-0.227	0.813
BXD08	0.637	1.419
BXD09	0.284	0.966
CAST	0.372	0.407
CCcont	-0.413	-0.018
DS01	-0.465	-0.84
DS02	-0.476	-0.202
DS04	-0.186	0.721
DS0c	0.044	-0.317
GP01	0.236	0.468
GP02	0.46	0.659
GP0c	-1.034	0.352
NOD	-0.081	0.199
NZO	0.432	0.877
PWK	0.379	0.386
H37Rv_KO_CtpC	-0.56	0.778
H37Rv_KO_CtpD	0.927	1.127
H37Rv_KO_Rv1272	-0.231	0.943
H37Rv_KO_SugABC	0.96	0.466
H37Rv_KO_MbtN	-0.865	0.016
Trans05	0.728	0.575
macrophage_unactivated	0.019	-0.644
IL1	-0.03	-0.139
Rapamycin	0.436	-0.341
Tcell	-0.13	-0.029
GMCSF	-0.351	-0.496
IFNab	0.447	-0.215
IFNg	0.283	-0.283
IFNg_GMCSF1	0.537	-0.132
Rv1432_day32	0.704	1.222
Rv1565c_day32	-1.627	0.079
secA2_input	0.985	1.046
delta_Rv3594	-0.18	-0.135
delta_Rv3717	0.651	-0.461
delta_Rv3811	0.443	-0.233
delta_Rv0954	-0.903	0.391
PonA1	-0.268	-0.403
EccD1_KO	0.145	0.158
EspI_KO	0.02	-0.742
PE35_KO	0.222	0.347
PPE68_KO	-0.259	0.186
glycerol2	-0.179	-0.052
lignocerate	-0.356	0.298
oleate	0.068	1.141
phosphatidylcholine	-0.367	0.113
acetate	-0.893	-0.485
glucAc	-0.64	-0.085
Rv0950ko	-0.648	0.492
Rv1096ko	-0.51	0.244
Rv3684ko	0.203	0.626
delta_otsA_trehalose	-0.684	-0.687