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 Rv0941c/-:

update plot	correlation	link to info on gene
Rv3521/-	(cc=0.5384)	info on Rv3521/-
Rv0779c/-	(cc=0.5133)	info on Rv0779c/-
Rv3265c/wbbL1	(cc=0.4732)	info on Rv3265c/wbbL1
Rv2892c/PPE45	(cc=0.4615)	info on Rv2892c/PPE45
Rv3144c/PPE52	(cc=0.4482)	info on Rv3144c/PPE52
Rv2971/-	(cc=0.4419)	info on Rv2971/-
Rv3831/-	(cc=0.4288)	info on Rv3831/-
Rv1735c/-	(cc=0.4243)	info on Rv1735c/-
Rv0765c/-	(cc=0.4096)	info on Rv0765c/-
Rv0578c/PE_PGRS7	(cc=0.4039)	info on Rv0578c/PE_PGRS7

Correlation of Rv0941c/- with Rv2971/-

Normalized LFCs for Rv0941c/-:
(description and provenance of datasets)

	Rv0941c/-	Rv2971/-
Fe_supp_jason_reseq	-0.985	-0.684
low_pH_jason_reseq	-0.522	-0.848
NO_jason_reseq	0.302	0.643
B6_jason_reseq	-0.074	-0.189
MHCII_jason_reseq	-0.103	-1.143
Isoniazid02	0.604	0.0
Rifampicin4	0.579	0.0
Ethambutol3	0.759	3.592
Meropenem3	0.357	0.266
Vancomycin16	1.021	0.305
Rv2680_day32	-0.36	0.0
H37Rv_KO_MarP	0.426	0.892
hypoxia_3wks	0.327	-1.483
hypoxia_6wks	0.013	1.034
glycerol	0.527	-1.355
cholesterol	0.182	-0.972
AJ	-0.057	-0.131
Bibs02	0.936	0.525
Bibs02c	-0.496	-0.829
BL6	0.184	-0.225
BL6a	-0.1	0.65
BXD01	0.573	0.136
BXD010	0.679	0.0
BXD011	0.543	0.734
BXD03	0.116	-0.649
BXD04	-0.248	0.0
BXD05	0.53	0.329
BXD06	0.327	0.637
BXD07	0.174	0.612
BXD08	0.172	-0.639
BXD09	0.107	0.516
CAST	-0.277	-0.913
CCcont	0.065	-0.369
DS01	0.0	1.287
DS02	0.774	0.881
DS04	0.878	1.238
DS0c	0.262	0.226
GP01	0.175	-0.662
GP02	0.951	-0.558
GP0c	0.503	-0.234
NOD	0.231	-0.404
NZO	0.409	-0.958
PWK	-0.465	-0.627
H37Rv_KO_CtpC	0.108	-1.09
H37Rv_KO_CtpD	0.898	-0.723
H37Rv_KO_Rv1272	1.642	1.097
H37Rv_KO_SugABC	0.765	1.421
H37Rv_KO_MbtN	-0.947	-0.119
Trans05	1.07	0.319
macrophage_unactivated	-0.051	-0.628
IL1	-0.047	0.519
Rapamycin	-0.359	0.0
Tcell	0.684	-1.01
GMCSF	0.536	-0.671
IFNab	-0.354	-0.768
IFNg	0.39	0.241
IFNg_GMCSF1	-0.182	-1.354
Rv1432_day32	-0.262	0.0
Rv1565c_day32	0.889	0.0
secA2_input	0.672	0.82
delta_Rv3594	0.366	1.608
delta_Rv3717	0.545	0.979
delta_Rv3811	0.626	0.149
delta_Rv0954	0.559	0.129
PonA1	0.089	0.115
EccD1_KO	0.335	1.059
EspI_KO	0.468	1.668
PE35_KO	0.709	0.723
PPE68_KO	0.736	2.061
glycerol2	-0.006	-0.311
lignocerate	-0.16	-0.27
oleate	-0.186	0.0
phosphatidylcholine	0.069	-0.487
acetate	-0.703	0.166
glucAc	-0.533	-0.501
Rv0950ko	1.269	1.517
Rv1096ko	1.004	2.636
Rv3684ko	0.907	1.359
delta_otsA_trehalose	0.811	0.0