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 Rv1739c/-:

update plot	correlation	link to info on gene
Rv2629/-	(cc=0.5253)	info on Rv2629/-
Rv2041c/-	(cc=0.4817)	info on Rv2041c/-
Rv2089c/pepE	(cc=0.4773)	info on Rv2089c/pepE
Rv1075c/-	(cc=0.4456)	info on Rv1075c/-
Rv1998c/-	(cc=0.4263)	info on Rv1998c/-
Rv2266/cyp124	(cc=0.4223)	info on Rv2266/cyp124
Rv0894/-	(cc=0.4082)	info on Rv0894/-
Rv2971/-	(cc=0.4007)	info on Rv2971/-
Rv1666c/cyp139	(cc=0.3994)	info on Rv1666c/cyp139
Rv1135c/PPE16	(cc=0.399)	info on Rv1135c/PPE16

Correlation of Rv1739c/- with Rv0894/-

Normalized LFCs for Rv1739c/-:
(description and provenance of datasets)

	Rv1739c/-	Rv0894/-
Fe_supp_jason_reseq	-0.778	-0.75
low_pH_jason_reseq	-0.296	-0.674
NO_jason_reseq	0.302	-1.378
B6_jason_reseq	0.09	-0.61
MHCII_jason_reseq	0.226	0.583
Isoniazid02	0.364	1.032
Rifampicin4	-0.089	-0.298
Ethambutol3	0.612	0.697
Meropenem3	1.294	2.686
Vancomycin16	-0.088	0.271
Rv2680_day32	0.101	-0.595
H37Rv_KO_MarP	-0.093	0.244
hypoxia_3wks	0.0	0.315
hypoxia_6wks	0.198	-0.265
glycerol	-0.101	0.047
cholesterol	-0.243	0.0
AJ	-0.057	-0.202
Bibs02	-0.397	-1.325
Bibs02c	0.017	-1.15
BL6	0.181	-1.873
BL6a	0.047	-1.531
BXD01	-0.449	-0.331
BXD010	0.23	-1.022
BXD011	-0.166	-0.923
BXD03	0.065	-2.243
BXD04	-0.105	-1.391
BXD05	0.374	-0.636
BXD06	-0.237	-0.936
BXD07	0.044	-1.141
BXD08	-0.343	-0.872
BXD09	-0.158	-1.485
CAST	-0.344	0.559
CCcont	-0.658	-1.231
DS01	-0.019	0.082
DS02	-0.017	0.548
DS04	0.046	-0.614
DS0c	-0.324	-0.519
GP01	-1.338	-1.973
GP02	-0.336	-0.03
GP0c	-1.42	-2.316
NOD	-0.252	0.545
NZO	0.095	0.539
PWK	-0.33	0.618
H37Rv_KO_CtpC	-1.231	-0.623
H37Rv_KO_CtpD	0.21	-0.979
H37Rv_KO_Rv1272	0.194	1.127
H37Rv_KO_SugABC	0.381	-0.545
H37Rv_KO_MbtN	0.318	-0.202
Trans05	0.952	-0.857
macrophage_unactivated	0.549	-0.644
IL1	0.202	-1.308
Rapamycin	-0.565	-1.854
Tcell	-0.192	-1.111
GMCSF	0.264	-2.26
IFNab	-0.363	-2.189
IFNg	-0.254	-2.288
IFNg_GMCSF1	-0.299	-0.245
Rv1432_day32	-0.09	-1.216
Rv1565c_day32	0.139	-0.627
secA2_input	-0.269	-2.75
delta_Rv3594	0.584	0.961
delta_Rv3717	0.573	0.107
delta_Rv3811	0.83	-0.87
delta_Rv0954	-0.176	0.699
PonA1	-0.629	0.402
EccD1_KO	0.457	-0.102
EspI_KO	0.046	-0.088
PE35_KO	0.531	0.088
PPE68_KO	0.538	1.126
glycerol2	-0.056	-0.684
lignocerate	-0.292	-0.933
oleate	0.339	-0.223
phosphatidylcholine	0.106	-0.622
acetate	-0.504	-1.184
glucAc	-0.363	-1.055
Rv0950ko	0.078	-0.157
Rv1096ko	0.525	0.075
Rv3684ko	-0.043	0.0
delta_otsA_trehalose	-0.957	-0.868