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 Rv0932c/pstS2

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

	Rv3686c/-	Rv0932c/pstS2
Fe_supp_jason_reseq	-0.354	-0.226
low_pH_jason_reseq	-1.596	0.065
NO_jason_reseq	-0.685	0.315
B6_jason_reseq	-0.767	0.937
MHCII_jason_reseq	-0.201	-0.494
Isoniazid02	-1.333	-1.042
Rifampicin4	-0.969	0.485
Ethambutol3	-1.155	-1.279
Meropenem3	-1.345	-1.144
Vancomycin16	-0.541	-0.605
Rv2680_day32	0.434	0.893
H37Rv_KO_MarP	0.167	-0.707
hypoxia_3wks	0.0	0.152
hypoxia_6wks	-0.209	0.487
glycerol	-0.187	-0.097
cholesterol	0.243	-0.03
AJ	-0.597	0.118
Bibs02	-0.17	-0.118
Bibs02c	0.255	-0.17
BL6	-0.72	0.714
BL6a	0.159	0.664
BXD01	0.326	0.494
BXD010	-0.059	0.668
BXD011	0.112	0.876
BXD03	0.298	0.862
BXD04	0.592	0.896
BXD05	-0.081	1.086
BXD06	0.117	0.825
BXD07	-0.227	0.659
BXD08	0.637	1.148
BXD09	0.284	0.715
CAST	0.372	1.051
CCcont	-0.413	0.169
DS01	-0.465	0.354
DS02	-0.476	0.394
DS04	-0.186	0.606
DS0c	0.044	0.539
GP01	0.236	0.278
GP02	0.46	0.279
GP0c	-1.034	0.189
NOD	-0.081	0.719
NZO	0.432	0.584
PWK	0.379	1.178
H37Rv_KO_CtpC	-0.56	0.138
H37Rv_KO_CtpD	0.927	0.361
H37Rv_KO_Rv1272	-0.231	1.144
H37Rv_KO_SugABC	0.96	0.855
H37Rv_KO_MbtN	-0.865	0.752
Trans05	0.728	0.983
macrophage_unactivated	0.019	0.344
IL1	-0.03	-0.101
Rapamycin	0.436	-0.071
Tcell	-0.13	-0.094
GMCSF	-0.351	0.465
IFNab	0.447	-0.193
IFNg	0.283	0.575
IFNg_GMCSF1	0.537	0.157
Rv1432_day32	0.704	1.05
Rv1565c_day32	-1.627	-0.578
secA2_input	0.985	0.11
delta_Rv3594	-0.18	0.057
delta_Rv3717	0.651	0.428
delta_Rv3811	0.443	0.077
delta_Rv0954	-0.903	-0.019
PonA1	-0.268	0.157
EccD1_KO	0.145	0.464
EspI_KO	0.02	0.784
PE35_KO	0.222	0.239
PPE68_KO	-0.259	0.304
glycerol2	-0.179	0.44
lignocerate	-0.356	0.168
oleate	0.068	0.225
phosphatidylcholine	-0.367	-0.311
acetate	-0.893	0.1
glucAc	-0.64	-0.166
Rv0950ko	-0.648	0.036
Rv1096ko	-0.51	-0.389
Rv3684ko	0.203	0.02
delta_otsA_trehalose	-0.684	-0.266