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 Rv2792c/-:

update plot	correlation	link to info on gene
Rv2071c/cobM	(cc=0.5652)	info on Rv2071c/cobM
Rv2548/vapC19	(cc=0.5553)	info on Rv2548/vapC19
Rv3151/nuoG	(cc=0.5472)	info on Rv3151/nuoG
Rv1217c/-	(cc=0.5453)	info on Rv1217c/-
Rv3152/nuoH	(cc=0.5396)	info on Rv3152/nuoH
Rv2161c/-	(cc=0.5307)	info on Rv2161c/-
Rv1561/vapC11	(cc=0.527)	info on Rv1561/vapC11
Rv3148/nuoD	(cc=0.5207)	info on Rv3148/nuoD
Rv2777c/-	(cc=0.5167)	info on Rv2777c/-
Rv1948c/-	(cc=0.5132)	info on Rv1948c/-

Correlation of Rv2792c/- with Rv1948c/-

Normalized LFCs for Rv2792c/-:
(description and provenance of datasets)

	Rv2792c/-	Rv1948c/-
Fe_supp_jason_reseq	0.104	-0.508
low_pH_jason_reseq	-2.541	-0.206
NO_jason_reseq	0.646	0.887
B6_jason_reseq	-2.183	-2.506
MHCII_jason_reseq	-2.462	-1.292
Isoniazid02	1.362	-0.185
Rifampicin4	0.19	-0.791
Ethambutol3	2.607	1.612
Meropenem3	-0.277	-0.38
Vancomycin16	0.69	0.361
Rv2680_day32	0.259	0.915
H37Rv_KO_MarP	0.313	-0.123
hypoxia_3wks	0.786	0.219
hypoxia_6wks	-0.081	-0.885
glycerol	0.353	-0.348
cholesterol	1.321	0.064
AJ	-0.398	1.086
Bibs02	-0.456	-0.817
Bibs02c	1.449	1.984
BL6	0.825	1.445
BL6a	2.274	1.709
BXD01	1.396	0.512
BXD010	1.793	0.421
BXD011	2.015	0.163
BXD03	1.751	-0.513
BXD04	0.972	0.322
BXD05	2.023	0.991
BXD06	1.533	0.525
BXD07	1.892	0.707
BXD08	1.177	0.437
BXD09	1.337	0.152
CAST	0.999	-0.277
CCcont	1.058	1.509
DS01	1.993	0.571
DS02	0.134	0.321
DS04	1.845	1.292
DS0c	0.068	1.31
GP01	1.446	1.547
GP02	1.964	0.019
GP0c	2.515	1.727
NOD	1.022	-0.576
NZO	-0.269	0.483
PWK	-1.026	0.74
H37Rv_KO_CtpC	0.488	0.981
H37Rv_KO_CtpD	1.252	1.213
H37Rv_KO_Rv1272	2.241	1.702
H37Rv_KO_SugABC	-1.047	0.706
H37Rv_KO_MbtN	-0.539	1.766
Trans05	0.861	1.32
macrophage_unactivated	-0.142	-0.521
IL1	-1.044	0.0
Rapamycin	0.555	-0.856
Tcell	-0.567	-0.831
GMCSF	0.267	-0.053
IFNab	-1.179	-0.121
IFNg	0.82	0.0
IFNg_GMCSF1	0.091	-0.126
Rv1432_day32	0.302	0.117
Rv1565c_day32	0.573	-0.839
secA2_input	0.454	-0.87
delta_Rv3594	0.532	0.193
delta_Rv3717	0.965	0.06
delta_Rv3811	0.518	0.419
delta_Rv0954	-0.404	0.041
PonA1	-0.822	-0.058
EccD1_KO	-0.954	-0.493
EspI_KO	0.616	-0.687
PE35_KO	0.443	0.312
PPE68_KO	-0.093	0.294
glycerol2	0.844	-0.233
lignocerate	0.692	0.216
oleate	1.381	0.211
phosphatidylcholine	1.522	0.127
acetate	0.204	0.514
glucAc	0.152	0.319
Rv0950ko	-2.325	0.217
Rv1096ko	-0.271	-1.342
Rv3684ko	-2.06	-2.319
delta_otsA_trehalose	0.847	-0.785