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 Rv1145/mmpL13a:

update plot	correlation	link to info on gene
Rv1378c/-	(cc=0.5497)	info on Rv1378c/-
Rv2351c/plcA	(cc=0.4939)	info on Rv2351c/plcA
Rv2958c/-	(cc=0.4846)	info on Rv2958c/-
Rv1004c/-	(cc=0.4832)	info on Rv1004c/-
Rv3056/dinP	(cc=0.4763)	info on Rv3056/dinP
Rv0610c/-	(cc=0.4738)	info on Rv0610c/-
Rv2016/-	(cc=0.4635)	info on Rv2016/-
Rv0764c/cyp51	(cc=0.4601)	info on Rv0764c/cyp51
Rv3018c/PPE46	(cc=0.4591)	info on Rv3018c/PPE46
Rv2910c/-	(cc=0.4587)	info on Rv2910c/-

Correlation of Rv1145/mmpL13a with Rv3018c/PPE46

Normalized LFCs for Rv1145/mmpL13a:
(description and provenance of datasets)

	Rv1145/mmpL13a	Rv3018c/PPE46
Fe_supp_jason_reseq	1.17	0.379
low_pH_jason_reseq	-0.962	-0.125
NO_jason_reseq	-0.648	0.391
B6_jason_reseq	0.054	0.618
MHCII_jason_reseq	0.472	0.516
Isoniazid02	0.327	0.911
Rifampicin4	0.0	0.921
Ethambutol3	2.5	1.828
Meropenem3	0.218	0.552
Vancomycin16	0.483	0.446
Rv2680_day32	-1.101	0.505
H37Rv_KO_MarP	0.82	0.274
hypoxia_3wks	0.092	-0.471
hypoxia_6wks	-0.578	-0.173
glycerol	-0.385	0.181
cholesterol	-0.63	0.214
AJ	0.193	0.706
Bibs02	0.478	0.576
Bibs02c	0.708	0.117
BL6	-0.888	0.246
BL6a	-0.118	0.304
BXD01	-0.404	0.339
BXD010	-1.107	0.369
BXD011	-0.923	0.524
BXD03	0.201	0.274
BXD04	0.372	-0.046
BXD05	-0.615	0.611
BXD06	-0.414	0.556
BXD07	-1.044	0.281
BXD08	0.831	0.433
BXD09	-0.28	0.208
CAST	-0.399	0.676
CCcont	-0.538	0.173
DS01	0.291	0.318
DS02	0.666	0.016
DS04	0.822	0.287
DS0c	1.081	0.107
GP01	-0.462	0.435
GP02	1.14	0.288
GP0c	0.273	-0.339
NOD	0.348	1.173
NZO	-0.134	0.331
PWK	0.352	0.628
H37Rv_KO_CtpC	0.673	0.613
H37Rv_KO_CtpD	2.037	0.758
H37Rv_KO_Rv1272	0.432	0.949
H37Rv_KO_SugABC	0.591	0.64
H37Rv_KO_MbtN	0.0	0.582
Trans05	-1.315	0.563
macrophage_unactivated	-0.597	-0.117
IL1	-1.7	-0.807
Rapamycin	-0.5	-0.571
Tcell	-0.531	-1.062
GMCSF	-0.758	-0.536
IFNab	-1.626	-1.24
IFNg	-0.652	-1.018
IFNg_GMCSF1	0.424	-0.613
Rv1432_day32	0.021	0.229
Rv1565c_day32	0.43	0.55
secA2_input	-2.465	-0.706
delta_Rv3594	-0.063	-0.128
delta_Rv3717	-0.172	-0.837
delta_Rv3811	0.012	-0.333
delta_Rv0954	0.209	-0.335
PonA1	0.679	-0.404
EccD1_KO	-0.704	-0.22
EspI_KO	-0.057	0.163
PE35_KO	-0.149	-0.02
PPE68_KO	0.064	0.138
glycerol2	0.015	0.807
lignocerate	0.283	1.119
oleate	0.234	0.055
phosphatidylcholine	0.522	0.961
acetate	0.053	0.987
glucAc	0.22	0.667
Rv0950ko	0.262	0.021
Rv1096ko	0.229	-0.232
Rv3684ko	0.0	-0.567
delta_otsA_trehalose	-0.546	-0.458