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 Rv3127/-:

update plot	correlation	link to info on gene
Rv0698/-	(cc=0.5544)	info on Rv0698/-
Rv1550/fadD11	(cc=0.5154)	info on Rv1550/fadD11
Rv2821c/-	(cc=0.5072)	info on Rv2821c/-
Rv3173c/-	(cc=0.4928)	info on Rv3173c/-
Rv3224B/-	(cc=0.4743)	info on Rv3224B/-
Rv1425/-	(cc=0.4654)	info on Rv1425/-
Rv2781c/-	(cc=0.4558)	info on Rv2781c/-
Rv2405/-	(cc=0.4531)	info on Rv2405/-
Rv1958c/-	(cc=0.4504)	info on Rv1958c/-
Rv3395A/-	(cc=0.4489)	info on Rv3395A/-

Correlation of Rv3127/- with Rv2821c/-

Normalized LFCs for Rv3127/-:
(description and provenance of datasets)

	Rv3127/-	Rv2821c/-
Fe_supp_jason_reseq	0.524	0.314
low_pH_jason_reseq	0.555	0.296
NO_jason_reseq	0.767	-0.273
B6_jason_reseq	-0.517	0.588
MHCII_jason_reseq	0.203	-1.292
Isoniazid02	-0.194	-0.194
Rifampicin4	0.485	0.523
Ethambutol3	1.054	-0.485
Meropenem3	2.889	1.93
Vancomycin16	0.573	0.244
Rv2680_day32	0.383	1.795
H37Rv_KO_MarP	1.082	-0.076
hypoxia_3wks	-0.694	-0.778
hypoxia_6wks	0.727	-0.441
glycerol	-1.009	-0.064
cholesterol	-0.338	-0.063
AJ	-0.424	0.277
Bibs02	-1.658	-0.314
Bibs02c	-0.908	0.15
BL6	1.453	0.535
BL6a	-1.201	0.466
BXD01	0.552	0.371
BXD010	0.678	-0.269
BXD011	0.575	-0.098
BXD03	-0.149	0.772
BXD04	0.214	0.87
BXD05	-0.423	0.575
BXD06	-0.277	0.055
BXD07	-0.287	0.112
BXD08	-0.177	0.244
BXD09	-0.656	-0.14
CAST	-0.791	0.619
CCcont	0.772	0.852
DS01	0.722	0.098
DS02	0.525	0.176
DS04	-0.169	0.304
DS0c	0.698	0.473
GP01	-0.801	0.622
GP02	0.637	1.579
GP0c	0.721	0.471
NOD	-0.195	0.093
NZO	-0.173	0.162
PWK	0.232	0.462
H37Rv_KO_CtpC	0.192	0.761
H37Rv_KO_CtpD	0.387	0.21
H37Rv_KO_Rv1272	1.464	1.23
H37Rv_KO_SugABC	-0.529	0.697
H37Rv_KO_MbtN	0.621	-0.487
Trans05	1.161	0.883
macrophage_unactivated	0.776	0.505
IL1	-0.308	-0.831
Rapamycin	-0.666	-0.47
Tcell	0.417	0.117
GMCSF	-0.372	-1.022
IFNab	-0.209	-1.572
IFNg	-0.684	-1.253
IFNg_GMCSF1	-0.933	-0.525
Rv1432_day32	0.939	-0.261
Rv1565c_day32	0.553	-0.389
secA2_input	-0.418	-0.056
delta_Rv3594	-0.332	0.431
delta_Rv3717	-0.206	0.081
delta_Rv3811	0.239	0.757
delta_Rv0954	-0.584	0.049
PonA1	-1.829	-0.504
EccD1_KO	-0.865	0.75
EspI_KO	-0.53	-0.445
PE35_KO	-0.064	0.508
PPE68_KO	0.138	0.192
glycerol2	1.545	1.24
lignocerate	2.115	1.789
oleate	-0.614	-0.238
phosphatidylcholine	1.437	1.263
acetate	1.278	1.829
glucAc	1.483	1.276
Rv0950ko	-0.338	0.256
Rv1096ko	-0.19	-0.368
Rv3684ko	-0.589	-0.835
delta_otsA_trehalose	0.36	0.535