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 Rv1554/frdC:

update plot	correlation	link to info on gene
Rv2266/cyp124	(cc=0.5296)	info on Rv2266/cyp124
Rv2780/ald	(cc=0.516)	info on Rv2780/ald
Rv2270/lppN	(cc=0.5063)	info on Rv2270/lppN
Rv3189/-	(cc=0.4999)	info on Rv3189/-
Rv2169c/-	(cc=0.497)	info on Rv2169c/-
Rv1101c/-	(cc=0.4946)	info on Rv1101c/-
Rv2290/lppO	(cc=0.4935)	info on Rv2290/lppO
Rv2083/-	(cc=0.4867)	info on Rv2083/-
Rv1399c/nlhH	(cc=0.4826)	info on Rv1399c/nlhH
Rv2847c/cysG	(cc=0.4808)	info on Rv2847c/cysG

Correlation of Rv1554/frdC with Rv2780/ald

Normalized LFCs for Rv1554/frdC:
(description and provenance of datasets)

	Rv1554/frdC	Rv2780/ald
Fe_supp_jason_reseq	-0.125	0.232
low_pH_jason_reseq	0.497	1.163
NO_jason_reseq	-0.333	0.0
B6_jason_reseq	1.17	0.544
MHCII_jason_reseq	0.359	0.74
Isoniazid02	0.054	-0.089
Rifampicin4	0.328	0.16
Ethambutol3	0.139	0.421
Meropenem3	-0.158	-0.092
Vancomycin16	-0.244	0.305
Rv2680_day32	0.035	-0.124
H37Rv_KO_MarP	0.377	-0.025
hypoxia_3wks	0.977	0.395
hypoxia_6wks	1.472	0.601
glycerol	0.187	-0.876
cholesterol	0.847	-0.455
AJ	-0.071	0.141
Bibs02	0.522	-0.334
Bibs02c	0.5	0.435
BL6	-0.352	0.112
BL6a	0.643	0.621
BXD01	0.13	0.346
BXD010	0.88	0.402
BXD011	0.297	0.467
BXD03	-0.195	0.269
BXD04	0.212	1.415
BXD05	0.648	0.422
BXD06	0.271	-0.162
BXD07	0.442	-0.105
BXD08	1.1	-0.225
BXD09	0.546	0.397
CAST	0.0	0.252
CCcont	-0.376	-0.557
DS01	0.977	0.346
DS02	0.682	0.154
DS04	0.308	0.533
DS0c	0.908	0.506
GP01	0.888	0.021
GP02	0.49	-0.205
GP0c	-0.328	-0.74
NOD	0.099	0.524
NZO	0.733	0.0
PWK	0.571	0.521
H37Rv_KO_CtpC	0.173	0.406
H37Rv_KO_CtpD	1.074	1.17
H37Rv_KO_Rv1272	0.957	0.866
H37Rv_KO_SugABC	0.243	-0.075
H37Rv_KO_MbtN	0.13	0.714
Trans05	1.146	0.117
macrophage_unactivated	0.758	0.625
IL1	0.534	0.753
Rapamycin	0.552	0.534
Tcell	0.274	0.169
GMCSF	0.246	0.0
IFNab	0.378	0.526
IFNg	0.5	0.404
IFNg_GMCSF1	0.729	0.798
Rv1432_day32	0.789	0.164
Rv1565c_day32	0.809	0.412
secA2_input	-1.088	-0.65
delta_Rv3594	0.837	-0.072
delta_Rv3717	0.59	-0.909
delta_Rv3811	-0.042	-0.726
delta_Rv0954	0.372	-0.421
PonA1	0.182	0.591
EccD1_KO	1.95	0.319
EspI_KO	0.625	0.536
PE35_KO	1.301	0.464
PPE68_KO	0.966	0.787
glycerol2	-0.343	-0.447
lignocerate	-0.446	-0.77
oleate	-0.121	-0.074
phosphatidylcholine	-0.381	-0.211
acetate	-0.56	-0.948
glucAc	-0.739	-0.942
Rv0950ko	0.256	-0.932
Rv1096ko	-0.799	-0.98
Rv3684ko	-0.982	-0.812
delta_otsA_trehalose	0.076	0.739