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 Rv3169/-:

update plot	correlation	link to info on gene
Rv3652/PE_PGRS60	(cc=0.4912)	info on Rv3652/PE_PGRS60
Rv3091/-	(cc=0.4839)	info on Rv3091/-
Rv1046c/-	(cc=0.4329)	info on Rv1046c/-
Rv1967/mce3B	(cc=0.4307)	info on Rv1967/mce3B
Rv1936/-	(cc=0.4055)	info on Rv1936/-
Rv0569/-	(cc=0.405)	info on Rv0569/-
Rv2578c/-	(cc=0.4045)	info on Rv2578c/-
Rv2701c/suhB	(cc=0.3862)	info on Rv2701c/suhB
Rv0753c/mmsA	(cc=0.3787)	info on Rv0753c/mmsA
Rv0613c/-	(cc=0.3731)	info on Rv0613c/-

Correlation of Rv3169/- with Rv0613c/-

Normalized LFCs for Rv3169/-:
(description and provenance of datasets)

	Rv3169/-	Rv0613c/-
Fe_supp_jason_reseq	-1.097	-1.264
low_pH_jason_reseq	0.299	-2.106
NO_jason_reseq	0.055	-0.643
B6_jason_reseq	-0.525	0.221
MHCII_jason_reseq	-0.2	0.773
Isoniazid02	0.122	-0.576
Rifampicin4	-0.574	0.187
Ethambutol3	-0.347	0.77
Meropenem3	-0.122	-0.367
Vancomycin16	1.711	0.183
Rv2680_day32	-0.208	1.226
H37Rv_KO_MarP	-0.66	0.676
hypoxia_3wks	0.407	-0.538
hypoxia_6wks	-0.434	-0.505
glycerol	0.664	1.002
cholesterol	1.087	0.774
AJ	0.274	0.59
Bibs02	-0.682	0.188
Bibs02c	-0.112	0.45
BL6	-1.073	-0.553
BL6a	-0.595	-0.339
BXD01	-0.79	-0.472
BXD010	-0.536	-0.253
BXD011	-0.17	-0.238
BXD03	0.082	-0.886
BXD04	0.515	0.215
BXD05	-0.331	-1.429
BXD06	-0.401	-0.675
BXD07	-0.397	-0.7
BXD08	-0.418	-0.024
BXD09	0.14	-1.03
CAST	0.252	0.496
CCcont	-0.746	-0.65
DS01	-0.101	0.659
DS02	-0.507	0.523
DS04	1.301	0.758
DS0c	-0.563	0.24
GP01	0.694	0.23
GP02	0.944	0.881
GP0c	0.013	-0.06
NOD	-0.438	-0.041
NZO	-0.315	0.549
PWK	-0.193	0.678
H37Rv_KO_CtpC	0.034	-0.786
H37Rv_KO_CtpD	-0.491	-0.119
H37Rv_KO_Rv1272	0.232	-0.459
H37Rv_KO_SugABC	-1.775	-1.183
H37Rv_KO_MbtN	-1.131	-1.082
Trans05	-1.357	-2.271
macrophage_unactivated	0.0	-0.208
IL1	0.0	-0.403
Rapamycin	0.132	-0.144
Tcell	-0.886	-1.043
GMCSF	0.539	-0.277
IFNab	0.172	-0.967
IFNg	0.152	-1.563
IFNg_GMCSF1	0.437	-0.239
Rv1432_day32	-0.043	-0.07
Rv1565c_day32	0.466	0.349
secA2_input	0.131	0.03
delta_Rv3594	0.22	0.364
delta_Rv3717	0.736	0.086
delta_Rv3811	-0.271	0.076
delta_Rv0954	-0.637	-0.068
PonA1	-0.394	-0.429
EccD1_KO	0.257	0.283
EspI_KO	1.115	0.317
PE35_KO	0.528	-0.158
PPE68_KO	0.71	-0.262
glycerol2	0.193	0.419
lignocerate	0.0	0.799
oleate	0.373	0.618
phosphatidylcholine	0.34	0.322
acetate	-0.298	-0.143
glucAc	0.313	0.238
Rv0950ko	0.561	-0.063
Rv1096ko	0.691	1.164
Rv3684ko	0.888	0.069
delta_otsA_trehalose	0.858	-1.054