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 Rv3224B/-

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

	Rv3127/-	Rv3224B/-
Fe_supp_jason_reseq	0.524	1.613
low_pH_jason_reseq	0.555	0.582
NO_jason_reseq	0.767	1.003
B6_jason_reseq	-0.517	1.336
MHCII_jason_reseq	0.203	-0.043
Isoniazid02	-0.194	0.0
Rifampicin4	0.485	0.43
Ethambutol3	1.054	-0.204
Meropenem3	2.889	2.432
Vancomycin16	0.573	-0.202
Rv2680_day32	0.383	1.574
H37Rv_KO_MarP	1.082	-0.34
hypoxia_3wks	-0.694	-1.798
hypoxia_6wks	0.727	-0.764
glycerol	-1.009	-1.318
cholesterol	-0.338	-0.644
AJ	-0.424	0.338
Bibs02	-1.658	1.041
Bibs02c	-0.908	0.32
BL6	1.453	2.331
BL6a	-1.201	0.016
BXD01	0.552	0.306
BXD010	0.678	-0.741
BXD011	0.575	-0.167
BXD03	-0.149	0.361
BXD04	0.214	0.999
BXD05	-0.423	-0.022
BXD06	-0.277	-0.239
BXD07	-0.287	0.12
BXD08	-0.177	0.422
BXD09	-0.656	-0.917
CAST	-0.791	0.384
CCcont	0.772	0.0
DS01	0.722	-0.905
DS02	0.525	0.156
DS04	-0.169	-1.487
DS0c	0.698	-1.483
GP01	-0.801	0.393
GP02	0.637	-1.146
GP0c	0.721	0.18
NOD	-0.195	-0.037
NZO	-0.173	0.829
PWK	0.232	-0.134
H37Rv_KO_CtpC	0.192	-1.011
H37Rv_KO_CtpD	0.387	2.225
H37Rv_KO_Rv1272	1.464	-1.207
H37Rv_KO_SugABC	-0.529	-0.776
H37Rv_KO_MbtN	0.621	0.961
Trans05	1.161	0.957
macrophage_unactivated	0.776	1.285
IL1	-0.308	-1.99
Rapamycin	-0.666	-0.546
Tcell	0.417	1.942
GMCSF	-0.372	-0.784
IFNab	-0.209	-0.426
IFNg	-0.684	0.583
IFNg_GMCSF1	-0.933	-1.2
Rv1432_day32	0.939	0.321
Rv1565c_day32	0.553	-1.093
secA2_input	-0.418	0.167
delta_Rv3594	-0.332	0.382
delta_Rv3717	-0.206	-1.565
delta_Rv3811	0.239	1.008
delta_Rv0954	-0.584	0.27
PonA1	-1.829	-0.851
EccD1_KO	-0.865	-1.092
EspI_KO	-0.53	-2.738
PE35_KO	-0.064	-2.033
PPE68_KO	0.138	-0.749
glycerol2	1.545	2.191
lignocerate	2.115	2.565
oleate	-0.614	-1.167
phosphatidylcholine	1.437	2.333
acetate	1.278	3.501
glucAc	1.483	2.476
Rv0950ko	-0.338	0.112
Rv1096ko	-0.19	0.531
Rv3684ko	-0.589	0.062
delta_otsA_trehalose	0.36	-0.835