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 Rv2631/-:

update plot	correlation	link to info on gene
Rv0061c/-	(cc=0.5636)	info on Rv0061c/-
Rv2874/dipZ	(cc=0.5365)	info on Rv2874/dipZ
Rv2915c/-	(cc=0.5267)	info on Rv2915c/-
Rv1708/-	(cc=0.5172)	info on Rv1708/-
Rv2636/-	(cc=0.5154)	info on Rv2636/-
Rv1180/pks3	(cc=0.5131)	info on Rv1180/pks3
Rv0623/vapB30	(cc=0.5071)	info on Rv0623/vapB30
Rv1995/-	(cc=0.507)	info on Rv1995/-
Rv2309A/-	(cc=0.5067)	info on Rv2309A/-
Rv0840c/pip	(cc=0.5056)	info on Rv0840c/pip

Correlation of Rv2631/- with Rv1708/-

Normalized LFCs for Rv2631/-:
(description and provenance of datasets)

	Rv2631/-	Rv1708/-
Fe_supp_jason_reseq	-0.099	0.415
low_pH_jason_reseq	1.081	0.231
NO_jason_reseq	0.53	0.362
B6_jason_reseq	-0.143	1.59
MHCII_jason_reseq	0.941	1.501
Isoniazid02	-0.016	0.0
Rifampicin4	0.433	-0.341
Ethambutol3	-0.066	0.14
Meropenem3	-0.202	-0.151
Vancomycin16	0.374	-0.334
Rv2680_day32	0.633	0.078
H37Rv_KO_MarP	0.454	0.313
hypoxia_3wks	-0.347	-0.427
hypoxia_6wks	-0.297	-0.727
glycerol	-0.192	-0.607
cholesterol	-0.02	-0.246
AJ	-0.086	-0.866
Bibs02	-0.424	-0.55
Bibs02c	-0.427	-0.941
BL6	-0.555	-0.906
BL6a	-0.659	-1.435
BXD01	-0.662	-0.695
BXD010	-0.193	-0.928
BXD011	-0.464	-0.923
BXD03	-0.307	-0.98
BXD04	-0.629	-0.896
BXD05	-0.168	-0.975
BXD06	-0.521	-0.967
BXD07	-0.418	-1.003
BXD08	-0.736	-0.963
BXD09	-0.756	-1.018
CAST	0.01	-0.859
CCcont	-0.861	-1.082
DS01	0.376	0.346
DS02	0.03	0.922
DS04	0.086	0.284
DS0c	0.134	0.596
GP01	-1.217	-0.715
GP02	-0.399	-0.603
GP0c	-1.008	-0.585
NOD	0.501	-0.381
NZO	-0.019	-0.6
PWK	-0.5	0.099
H37Rv_KO_CtpC	-1.291	-1.014
H37Rv_KO_CtpD	0.206	-0.918
H37Rv_KO_Rv1272	0.219	-1.022
H37Rv_KO_SugABC	-0.796	-0.529
H37Rv_KO_MbtN	-1.089	-0.644
Trans05	-0.111	-0.144
macrophage_unactivated	0.12	-0.83
IL1	-0.448	-0.78
Rapamycin	-0.031	-0.807
Tcell	-0.775	-0.857
GMCSF	0.05	-0.694
IFNab	-0.36	-0.795
IFNg	-0.347	-0.703
IFNg_GMCSF1	0.031	-0.396
Rv1432_day32	0.523	0.0
Rv1565c_day32	0.035	0.0
secA2_input	0.271	-0.377
delta_Rv3594	-0.655	-0.315
delta_Rv3717	-0.208	0.331
delta_Rv3811	0.0	0.918
delta_Rv0954	-0.827	-0.756
PonA1	-1.618	-0.516
EccD1_KO	0.73	0.73
EspI_KO	0.368	1.435
PE35_KO	0.869	0.335
PPE68_KO	0.586	0.368
glycerol2	0.046	0.338
lignocerate	0.488	0.0
oleate	-0.285	0.179
phosphatidylcholine	0.405	0.176
acetate	-0.271	0.743
glucAc	0.0	-0.143
Rv0950ko	-0.262	-0.669
Rv1096ko	0.0	0.302
Rv3684ko	-0.776	0.632
delta_otsA_trehalose	-0.05	0.654