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 Rv0698/-

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

	Rv3127/-	Rv0698/-
Fe_supp_jason_reseq	0.524	-2.327
low_pH_jason_reseq	0.555	0.706
NO_jason_reseq	0.767	-0.155
B6_jason_reseq	-0.517	-2.577
MHCII_jason_reseq	0.203	-1.035
Isoniazid02	-0.194	-0.113
Rifampicin4	0.485	0.39
Ethambutol3	1.054	0.336
Meropenem3	2.889	0.089
Vancomycin16	0.573	0.0
Rv2680_day32	0.383	1.157
H37Rv_KO_MarP	1.082	0.313
hypoxia_3wks	-0.694	-0.921
hypoxia_6wks	0.727	-1.059
glycerol	-1.009	0.192
cholesterol	-0.338	0.203
AJ	-0.424	-0.118
Bibs02	-1.658	-0.775
Bibs02c	-0.908	-1.622
BL6	1.453	1.536
BL6a	-1.201	-0.207
BXD01	0.552	0.911
BXD010	0.678	0.432
BXD011	0.575	0.233
BXD03	-0.149	-0.069
BXD04	0.214	2.14
BXD05	-0.423	0.835
BXD06	-0.277	0.451
BXD07	-0.287	1.134
BXD08	-0.177	0.541
BXD09	-0.656	-0.071
CAST	-0.791	-0.37
CCcont	0.772	2.126
DS01	0.722	0.527
DS02	0.525	0.654
DS04	-0.169	0.354
DS0c	0.698	0.809
GP01	-0.801	0.715
GP02	0.637	-0.292
GP0c	0.721	1.916
NOD	-0.195	1.57
NZO	-0.173	-0.321
PWK	0.232	0.274
H37Rv_KO_CtpC	0.192	-0.261
H37Rv_KO_CtpD	0.387	0.949
H37Rv_KO_Rv1272	1.464	0.315
H37Rv_KO_SugABC	-0.529	-0.669
H37Rv_KO_MbtN	0.621	0.098
Trans05	1.161	1.877
macrophage_unactivated	0.776	0.133
IL1	-0.308	-0.128
Rapamycin	-0.666	-0.132
Tcell	0.417	0.521
GMCSF	-0.372	-1.172
IFNab	-0.209	0.248
IFNg	-0.684	-0.355
IFNg_GMCSF1	-0.933	-0.135
Rv1432_day32	0.939	0.0
Rv1565c_day32	0.553	0.45
secA2_input	-0.418	-2.719
delta_Rv3594	-0.332	-0.922
delta_Rv3717	-0.206	-2.231
delta_Rv3811	0.239	-0.107
delta_Rv0954	-0.584	-0.142
PonA1	-1.829	-1.196
EccD1_KO	-0.865	-2.144
EspI_KO	-0.53	-0.827
PE35_KO	-0.064	-0.128
PPE68_KO	0.138	-0.141
glycerol2	1.545	2.221
lignocerate	2.115	2.498
oleate	-0.614	-0.688
phosphatidylcholine	1.437	2.359
acetate	1.278	3.41
glucAc	1.483	2.902
Rv0950ko	-0.338	-0.256
Rv1096ko	-0.19	-0.528
Rv3684ko	-0.589	-0.888
delta_otsA_trehalose	0.36	1.38