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 Rv2957/-:

update plot	correlation	link to info on gene
Rv3125c/PPE49	(cc=0.6276)	info on Rv3125c/PPE49
Rv1498c/-	(cc=0.5722)	info on Rv1498c/-
Rv2775/-	(cc=0.5567)	info on Rv2775/-
Rv1506c/-	(cc=0.5511)	info on Rv1506c/-
Rv1503c/-	(cc=0.551)	info on Rv1503c/-
Rv2777c/-	(cc=0.5378)	info on Rv2777c/-
Rv3142c/-	(cc=0.5116)	info on Rv3142c/-
Rv2807/-	(cc=0.5105)	info on Rv2807/-
Rv2452c/-	(cc=0.5068)	info on Rv2452c/-
Rv2428/ahpC	(cc=0.5063)	info on Rv2428/ahpC

Correlation of Rv2957/- with Rv2452c/-

Normalized LFCs for Rv2957/-:
(description and provenance of datasets)

	Rv2957/-	Rv2452c/-
Fe_supp_jason_reseq	0.507	0.96
low_pH_jason_reseq	-0.46	-0.964
NO_jason_reseq	-0.018	-1.313
B6_jason_reseq	0.052	-0.583
MHCII_jason_reseq	0.319	-0.223
Isoniazid02	-0.784	-0.036
Rifampicin4	0.417	-1.719
Ethambutol3	0.316	0.01
Meropenem3	-0.769	-0.561
Vancomycin16	-0.17	-0.738
Rv2680_day32	0.675	0.925
H37Rv_KO_MarP	0.492	-0.621
hypoxia_3wks	-0.12	0.0
hypoxia_6wks	-0.236	-1.741
glycerol	-0.018	0.0
cholesterol	-0.17	0.879
AJ	0.171	0.336
Bibs02	-0.04	-0.923
Bibs02c	0.399	-0.841
BL6	0.256	1.436
BL6a	0.131	1.722
BXD01	0.434	0.958
BXD010	0.519	0.495
BXD011	0.322	1.58
BXD03	0.536	1.511
BXD04	0.994	1.075
BXD05	0.11	1.515
BXD06	0.465	0.742
BXD07	0.422	1.6
BXD08	0.268	1.268
BXD09	0.49	1.494
CAST	0.347	0.1
CCcont	0.191	1.612
DS01	-0.123	-0.277
DS02	0.221	-2.059
DS04	-0.228	-0.485
DS0c	0.358	-0.872
GP01	0.782	1.026
GP02	0.576	1.277
GP0c	0.039	1.216
NOD	0.692	2.039
NZO	-0.402	-1.582
PWK	0.395	-1.294
H37Rv_KO_CtpC	0.936	1.687
H37Rv_KO_CtpD	0.909	0.874
H37Rv_KO_Rv1272	1.143	1.052
H37Rv_KO_SugABC	0.842	0.637
H37Rv_KO_MbtN	0.76	-0.071
Trans05	1.468	1.058
macrophage_unactivated	0.615	0.126
IL1	-0.329	-0.249
Rapamycin	-0.307	0.776
Tcell	-0.476	-0.033
GMCSF	-0.869	0.576
IFNab	-0.115	0.181
IFNg	0.139	-0.056
IFNg_GMCSF1	-0.478	-0.368
Rv1432_day32	0.01	-0.894
Rv1565c_day32	0.0	0.515
secA2_input	0.114	-0.094
delta_Rv3594	0.061	-0.561
delta_Rv3717	-0.609	-1.451
delta_Rv3811	0.0	-1.28
delta_Rv0954	-0.561	-1.194
PonA1	-0.38	-2.221
EccD1_KO	0.51	0.918
EspI_KO	0.853	1.098
PE35_KO	1.103	0.715
PPE68_KO	0.745	0.854
glycerol2	0.303	-0.158
lignocerate	0.247	-0.312
oleate	0.251	-1.089
phosphatidylcholine	0.356	-0.048
acetate	-0.318	-0.494
glucAc	-0.209	-0.694
Rv0950ko	0.666	-0.407
Rv1096ko	-0.344	-1.36
Rv3684ko	0.131	0.105
delta_otsA_trehalose	-0.462	-1.24