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 Rv2962c/-:

update plot	correlation	link to info on gene
Rv1866/-	(cc=0.5811)	info on Rv1866/-
Rv3223c/sigH	(cc=0.5099)	info on Rv3223c/sigH
Rv3555c/-	(cc=0.4758)	info on Rv3555c/-
Rv1755c/plcD	(cc=0.4722)	info on Rv1755c/plcD
Rv1872c/lldD2	(cc=0.4636)	info on Rv1872c/lldD2
Rv1913/-	(cc=0.4592)	info on Rv1913/-
Rv3110/moaB1	(cc=0.4558)	info on Rv3110/moaB1
Rv1087/PE_PGRS21	(cc=0.4554)	info on Rv1087/PE_PGRS21
Rv2841c/nusA	(cc=0.4546)	info on Rv2841c/nusA
Rv1962A/vapB35	(cc=0.4544)	info on Rv1962A/vapB35

Correlation of Rv2962c/- with Rv1866/-

Normalized LFCs for Rv2962c/-:
(description and provenance of datasets)

	Rv2962c/-	Rv1866/-
Fe_supp_jason_reseq	0.655	0.317
low_pH_jason_reseq	-0.823	-0.908
NO_jason_reseq	-0.142	-0.354
B6_jason_reseq	0.103	-0.287
MHCII_jason_reseq	0.459	0.121
Isoniazid02	1.398	0.591
Rifampicin4	-0.192	0.0
Ethambutol3	1.025	0.652
Meropenem3	-0.193	-0.247
Vancomycin16	-0.326	-0.698
Rv2680_day32	0.05	0.152
H37Rv_KO_MarP	0.586	-0.154
hypoxia_3wks	0.239	0.805
hypoxia_6wks	0.056	0.564
glycerol	-0.984	-0.212
cholesterol	1.795	0.414
AJ	0.35	0.066
Bibs02	-0.351	-0.685
Bibs02c	-0.606	0.088
BL6	1.034	-0.723
BL6a	0.026	0.056
BXD01	0.577	-0.201
BXD010	0.626	0.122
BXD011	0.111	0.018
BXD03	0.396	-0.164
BXD04	0.461	-0.515
BXD05	0.203	-0.059
BXD06	0.331	0.056
BXD07	0.504	-0.607
BXD08	0.514	-0.227
BXD09	0.362	-0.847
CAST	-0.235	0.0
CCcont	0.57	-0.9
DS01	0.248	0.099
DS02	0.176	-0.063
DS04	-0.013	0.028
DS0c	0.163	0.525
GP01	0.759	0.803
GP02	1.286	0.357
GP0c	0.698	0.835
NOD	0.732	0.215
NZO	0.026	0.459
PWK	0.148	0.055
H37Rv_KO_CtpC	0.459	0.113
H37Rv_KO_CtpD	1.486	0.971
H37Rv_KO_Rv1272	0.532	1.402
H37Rv_KO_SugABC	0.535	0.832
H37Rv_KO_MbtN	1.092	1.654
Trans05	0.78	0.645
macrophage_unactivated	-0.18	-1.165
IL1	-0.878	-1.771
Rapamycin	-1.004	-1.04
Tcell	-0.583	-1.01
GMCSF	-1.075	-1.138
IFNab	-0.626	-1.911
IFNg	-0.831	-1.502
IFNg_GMCSF1	-0.65	-1.065
Rv1432_day32	0.159	0.494
Rv1565c_day32	0.047	0.0
secA2_input	-0.576	-0.291
delta_Rv3594	0.113	0.332
delta_Rv3717	-0.036	0.459
delta_Rv3811	0.11	0.079
delta_Rv0954	0.554	-0.12
PonA1	-0.022	-0.507
EccD1_KO	0.832	-1.105
EspI_KO	-0.086	-0.163
PE35_KO	0.615	0.265
PPE68_KO	0.563	0.118
glycerol2	0.397	0.263
lignocerate	0.189	-0.235
oleate	0.238	0.713
phosphatidylcholine	0.321	0.473
acetate	0.268	-0.246
glucAc	0.346	-0.877
Rv0950ko	-0.169	-0.971
Rv1096ko	0.229	-1.043
Rv3684ko	0.416	-0.062
delta_otsA_trehalose	1.239	0.325