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 Rv0194/-

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

	Rv3686c/-	Rv0194/-
Fe_supp_jason_reseq	-0.354	-0.058
low_pH_jason_reseq	-1.596	-0.393
NO_jason_reseq	-0.685	0.037
B6_jason_reseq	-0.767	-0.047
MHCII_jason_reseq	-0.201	-0.046
Isoniazid02	-1.333	-0.858
Rifampicin4	-0.969	0.203
Ethambutol3	-1.155	-0.409
Meropenem3	-1.345	-1.028
Vancomycin16	-0.541	-0.464
Rv2680_day32	0.434	0.181
H37Rv_KO_MarP	0.167	0.456
hypoxia_3wks	0.0	0.056
hypoxia_6wks	-0.209	0.115
glycerol	-0.187	0.0
cholesterol	0.243	-0.104
AJ	-0.597	0.111
Bibs02	-0.17	0.0
Bibs02c	0.255	0.035
BL6	-0.72	0.133
BL6a	0.159	0.089
BXD01	0.326	-0.121
BXD010	-0.059	0.049
BXD011	0.112	0.049
BXD03	0.298	-0.036
BXD04	0.592	0.234
BXD05	-0.081	-0.11
BXD06	0.117	0.076
BXD07	-0.227	0.159
BXD08	0.637	0.043
BXD09	0.284	-0.027
CAST	0.372	0.067
CCcont	-0.413	-0.01
DS01	-0.465	-0.046
DS02	-0.476	0.071
DS04	-0.186	0.056
DS0c	0.044	0.481
GP01	0.236	0.584
GP02	0.46	0.367
GP0c	-1.034	-0.07
NOD	-0.081	0.164
NZO	0.432	0.498
PWK	0.379	0.266
H37Rv_KO_CtpC	-0.56	0.053
H37Rv_KO_CtpD	0.927	1.262
H37Rv_KO_Rv1272	-0.231	-0.274
H37Rv_KO_SugABC	0.96	0.454
H37Rv_KO_MbtN	-0.865	0.423
Trans05	0.728	0.303
macrophage_unactivated	0.019	-0.016
IL1	-0.03	-0.131
Rapamycin	0.436	-0.193
Tcell	-0.13	-0.339
GMCSF	-0.351	0.063
IFNab	0.447	0.115
IFNg	0.283	0.051
IFNg_GMCSF1	0.537	0.148
Rv1432_day32	0.704	0.194
Rv1565c_day32	-1.627	-0.469
secA2_input	0.985	0.025
delta_Rv3594	-0.18	-0.304
delta_Rv3717	0.651	-0.214
delta_Rv3811	0.443	-0.173
delta_Rv0954	-0.903	-0.275
PonA1	-0.268	-0.54
EccD1_KO	0.145	-0.168
EspI_KO	0.02	-0.362
PE35_KO	0.222	-0.519
PPE68_KO	-0.259	-0.518
glycerol2	-0.179	0.61
lignocerate	-0.356	0.496
oleate	0.068	0.564
phosphatidylcholine	-0.367	0.335
acetate	-0.893	0.098
glucAc	-0.64	-0.025
Rv0950ko	-0.648	0.507
Rv1096ko	-0.51	-0.341
Rv3684ko	0.203	0.0
delta_otsA_trehalose	-0.684	-0.205