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 Rv1550/fadD11

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

	Rv3127/-	Rv1550/fadD11
Fe_supp_jason_reseq	0.524	0.226
low_pH_jason_reseq	0.555	0.239
NO_jason_reseq	0.767	0.36
B6_jason_reseq	-0.517	0.209
MHCII_jason_reseq	0.203	0.296
Isoniazid02	-0.194	0.549
Rifampicin4	0.485	0.582
Ethambutol3	1.054	1.583
Meropenem3	2.889	1.961
Vancomycin16	0.573	0.493
Rv2680_day32	0.383	0.6
H37Rv_KO_MarP	1.082	0.128
hypoxia_3wks	-0.694	-0.156
hypoxia_6wks	0.727	0.094
glycerol	-1.009	0.328
cholesterol	-0.338	0.036
AJ	-0.424	0.029
Bibs02	-1.658	0.246
Bibs02c	-0.908	0.47
BL6	1.453	0.898
BL6a	-1.201	0.716
BXD01	0.552	1.373
BXD010	0.678	0.546
BXD011	0.575	0.845
BXD03	-0.149	0.699
BXD04	0.214	0.516
BXD05	-0.423	0.66
BXD06	-0.277	0.881
BXD07	-0.287	0.537
BXD08	-0.177	0.909
BXD09	-0.656	1.009
CAST	-0.791	0.22
CCcont	0.772	0.559
DS01	0.722	0.318
DS02	0.525	0.257
DS04	-0.169	1.012
DS0c	0.698	0.292
GP01	-0.801	0.638
GP02	0.637	0.483
GP0c	0.721	-0.041
NOD	-0.195	-0.042
NZO	-0.173	0.11
PWK	0.232	0.199
H37Rv_KO_CtpC	0.192	0.365
H37Rv_KO_CtpD	0.387	0.48
H37Rv_KO_Rv1272	1.464	1.287
H37Rv_KO_SugABC	-0.529	0.996
H37Rv_KO_MbtN	0.621	1.027
Trans05	1.161	1.562
macrophage_unactivated	0.776	-0.044
IL1	-0.308	-0.062
Rapamycin	-0.666	0.0
Tcell	0.417	1.092
GMCSF	-0.372	-0.697
IFNab	-0.209	-0.825
IFNg	-0.684	-0.174
IFNg_GMCSF1	-0.933	0.283
Rv1432_day32	0.939	1.335
Rv1565c_day32	0.553	-0.177
secA2_input	-0.418	0.075
delta_Rv3594	-0.332	0.493
delta_Rv3717	-0.206	1.419
delta_Rv3811	0.239	0.821
delta_Rv0954	-0.584	-0.477
PonA1	-1.829	-0.2
EccD1_KO	-0.865	-0.737
EspI_KO	-0.53	-0.707
PE35_KO	-0.064	0.02
PPE68_KO	0.138	-0.067
glycerol2	1.545	0.89
lignocerate	2.115	1.335
oleate	-0.614	0.017
phosphatidylcholine	1.437	1.183
acetate	1.278	0.992
glucAc	1.483	0.854
Rv0950ko	-0.338	-0.651
Rv1096ko	-0.19	-0.609
Rv3684ko	-0.589	-0.429
delta_otsA_trehalose	0.36	-0.803